Parts

Dictionary v2.2.3 Documentation v2.1.0

Parts are the smallest way of describing anything in the ODM. An analogy to parts of a car can be used to illustrate this point. If you own a car, your garage can access a parts list that contains every part of your car, right down to every nut and bolt. Similarly, the ODM has a part ID (partID) and part description (partDescription) for every measure, method, and attribute. There are also part IDs for units, aggregations, and other parts. The part list is presented below.

Did you know you can identify part IDs by their specific naming format?

Each part ID starts with a lowercase character and contains no special characters. Parts have less than 12 characters, while part types such as units and aggregations have a maximum of seven characters.

The unique construction of part IDs serves several purposes in addition to generating valid URLs. Users can create wide table variable names (headers) using part IDs that are valid in all open software languages. ODM supports a standard method of generating wide variable names by concatenating partIDs with an underscore, _. For this reason, some part types have a limit of seven characters to ensure the total length of wide names remains less than 35 characters, which is the character limit length of some statistical language software. The wide variable naming method will be added to the documentation.

a1306s delta-variant gene target

(a1306s). a1306s delta-variant gene target
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: sarsCov2
Class: mutation
Nomenclature: mutation
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

a1918v delta-variant gene target

(a1918v). a1918v delta-variant gene target
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: sarsCov2
Class: mutation
Nomenclature: mutation
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

a2710t omicron-variant gene target

(a2710t). a2710t omicron-variant gene target
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: sarsCov2
Class: mutation
Nomenclature: mutation
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

a63t omicron-variant gene target

(a63t). a63t omicron-variant gene target
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: sarsCov2
Class: mutation
Nomenclature: mutation
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

a67v omicron-variant gene target

(a67v). a67v omicron-variant gene target
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: sarsCov2
Class: mutation
Nomenclature: mutation
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Omicron Variant a67v del69 and del70 mutations

(a67vDel69Del70). Omicron Variant a67v mutation, and del 69 and del70 mutations co-occuring
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: omicronGrp
Class: mutation
Nomenclature: mutation
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Atline Analyzer

(aas). Atline analyzer with sampler. An atline analyzer with sampler.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: waterCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Absolute humidity

(absHum). A measure of the total mass of water vapour present in the air per volume of air.
Part Type: measurements
Domain: phy
Speciment ID: siSpecimenSet
Compartment Set: anyCompartmentSet
Group: siteFeat
Class: humid
Nomenclature: humid
Ontology Reference: NA
Category Set ID: NA
Unit Set: absHumidUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Absolute humidity unit set

(absHumidUnitSet). Unit set for absolute humidity measurements.
Part Type: unitSets
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: absHumidUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Academic institution

(academ). The category of organization type used for academic institutions or research groups.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Acinetobacter

(acinetobacter). Acinetobacter
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: acinetobacterGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Acinetobacter Group

(acinetobacterGrp). A group of measures/methods related to acinebacter bacteria. Used to describe the organism information for general measures.
Part Type: groups
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: acinetobacterGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Number of active cases

(acti). Number of active cases.
Part Type: units
Domain: bio
Speciment ID: poSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: integer
Missingness Set: NA
Minimum Value: 0
Maximum Value: NA
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Number of active cases by episode date

(actiEp). Number of active cases by episode date. Episode date is the earliest of onset, test or reported date for a confirmed case.
Part Type: units
Domain: bio
Speciment ID: poSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: integer
Missingness Set: NA
Minimum Value: 0
Maximum Value: NA
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Number of active cases by Onset date

(actiOn). Number of active cases by onset date. Episode date is the earliest of onset, test or reported date for a confirmed case.
Part Type: units
Domain: bio
Speciment ID: poSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: integer
Missingness Set: NA
Minimum Value: 0
Maximum Value: NA
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Number of active cases by Report date

(actiRep). Number of active cases by report date. Episode date is the earliest of onset, test or reported date for a confirmed case.
Part Type: units
Domain: bio
Speciment ID: poSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: integer
Missingness Set: NA
Minimum Value: 0
Maximum Value: NA
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Number of active cases by test date

(actiTest). Number of active cases by test date. Episode date is the earliest of onset, test or reported date for a confirmed case.
Part Type: units
Domain: bio
Speciment ID: poSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: integer
Missingness Set: NA
Minimum Value: 0
Maximum Value: NA
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Active

(active). Indicator that a part is in current use.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Address table Shorthand

(ad). The abbreviated short name used to reference the The table that contains information about addresses. Addresses can recorded for sites, organizations or contacts (indivduals). table
Part Type: shortName
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.2.

Analysis date

(aDate). Date the measurement was performed in the lab.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: datetime
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: depreciated. First released: depreciated. Last updated: 2.1.0.

Analysis date end

(aDateEnd). Date the measurement or analysis was completed.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: datetime
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Analysis date start

(aDateStart). Date the measurement or analysis was started.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: datetime
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Address Line 1

(addL1). Line 1 (the street name, number and direction) for a given address.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Address Line 2

(addL2). Line 2 (the unit number) for a given address.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Address table

(addresses). The table that contains information about addresses. Addresses can recorded for sites, organizations or contacts (indivduals). The Sites, Organizations, and Contacts tables include a link to the addresses table through Address ID.
Part Type: tables
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: programDescr
Nomenclature: programDescr
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Addresses table column order

(addressesOrder). Specifies the order of the columns in the Addresses table.
Part Type: tableSupport
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: integer
Missingness Set: NA
Minimum Value: 1
Maximum Value: NA
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Address table required headers

(addressesRequired). Specifies the columns required in a Addresses table.
Part Type: tableSupport
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Address ID

(addressID). A unique identifier for an address.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Adenovirus (F40/41)

(adenovirusF40). Adenovirus (F40/41)
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: adenovirusGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Adenovirus Group

(adenovirusGrp). A group of measures/methods related to Adenoviruses. Used to describe the organism information for general measures.
Part Type: groups
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: adenovirusGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Administrative regions

(admRegLevel). Administrative regions
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: nrNAMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: depreciated. First released: depreciated. Last updated: 2.1.0.

Adenovirus 40

(adv40). Adenovirus serotype 40.
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: adenovirusGrp
Class: allele
Nomenclature: allele
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.1.0.

Adenovirus 41

(adv41). Adenovirus serotype 41.
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: adenovirusGrp
Class: allele
Nomenclature: allele
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.1.0.

Adenovirus F41 Fibre Gene Target

(advF41Fibre). Human Adenovirus Group F41 Fiber gene target
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: adenovirusGrp
Class: allele
Nomenclature: allele
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.1.0.

Academic Free License v3.0

(afl30). The licensing for the measure or data set is managed under the Academic Free License v3.0.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: https://choosealicense.com/licenses/afl-3.0/
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Air filter

(afu). Air filter as part of filtration or circulating unit. Typically the unit would have a fan or blower.
Part Type: categories
Domain: naDomain
Speciment ID: saSpecimenSet
Compartment Set: airCompartmentSet
Group: colGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Aggregation scale

(aggragationScale). A scale used for an aggregation. Only applicable for measures and units.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 12
Part Status: active. First released: active. Last updated: 2.0.0.

Aggregation

(aggregation). Statistical measures used to report a measure. Each aggregation has a corresponding value. The default aggregation is `single`, which corresponds to a single measurement.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 12
Part Status: active. First released: active. Last updated: 2.0.0.

Aggregation input (wide table)

(aggregationInput). The partID for the aggregation being used in a wide name.
Part Type: attributes
Domain: naDomain
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Aggregation name (wide table)

(aggregationName). The aggregation referenced for the wide name.
Part Type: attributes
Domain: naDomain
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Aggregations

(aggregations). Statistical measures used to report a measure. Each measure reported as a number should be reported with an aggregation. The default aggregation is `single`, which corresponds to a single measurement.
Part Type: partType
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Aggregation scales

(aggregationScales). The scale of an aggregation set. Aggregation scales include quantitative and qualitative.
Part Type: partType
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Aggregation set

(aggregationSet). The aggregation set for a unit.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 12
Part Status: active. First released: active. Last updated: 2.0.0.

Aggregation sets

(aggregationSets). Sets of aggregations. Examples of aggregation sets include logarithm, linear and boolean.
Part Type: partType
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 15
Part Status: active. First released: active. Last updated: 2.0.0.

GNU Affero General Public License v3.0

(agpl30). The licensing for the measure or data set is managed under the GNU Affero General Public License v3.0.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: https://choosealicense.com/licenses/agpl-3.0/
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Air compartment

(air). A measure or observation made from a substance in the air.
Part Type: compartments
Domain: allDo
Speciment ID: anySpecimenSet
Compartment Set: airCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 1
Part Status: active. First released: active. Last updated: 2.0.0.

Air compartment set

(airCompartmentSet). A compartment set for measures and methods in the air compartment.
Part Type: compartmentSets
Domain: allDo
Speciment ID: anySpecimenSet
Compartment Set: airCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 15
Part Status: active. First released: active. Last updated: 2.0.0.

Airplane

(airpln). Airplane sample shed category type
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: anyCompartmentSet
Group: colGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Airport

(airport). Airport sample shed category type
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Airport lists worksheet

(airportLists). Parts lists used to generate airport and airplane data entry templates.
Part Type: dictionarySupport
Domain: naDomain
Speciment ID: saSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Airport Sheets Set

(airportSheetSet). Worksheets in the full airport surveillance template (list + template). `ODM_template-planes_{version}.xlxs
Part Type: dictSets
Domain: naDomain
Speciment ID: saSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Airport Surveillance Template

(airportTemplate). The input template for airport and airplane surveillance in the EU.
Part Type: dictionarySupport
Domain: naDomain
Speciment ID: saSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.1.0.

Air and surface compartment set

(airSurfaceCompartmentSet). A compartment set for measures and methods in the air or surface compartments.
Part Type: compartmentSets
Domain: allDo
Speciment ID: anySpecimenSet
Compartment Set: airSurfaceCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 15
Part Status: active. First released: active. Last updated: 2.0.0.

Environmental temperature

(airTemp). Environmental temperature.
Part Type: measurements
Domain: phy
Speciment ID: siSpecimenSet
Compartment Set: anyCompartmentSet
Group: siteFeat
Class: temperature
Nomenclature: temperature
Ontology Reference: NA
Category Set ID: NA
Unit Set: temperatureUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: float
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Air and water compartment set

(airWaterCompartmentSet). A compartment set for measures and methods in the air or water compartments.
Part Type: compartmentSets
Domain: allDo
Speciment ID: anySpecimenSet
Compartment Set: airWaterCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 15
Part Status: active. First released: active. Last updated: 2.0.0.

Alias depreciated

(aliasDep). ID of an assay that is the same or similar. A comma separated list. Deprecated as of version 2, please avoid use. Use notes instead.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 10
Part Status: depreciated. First released: depreciated. Last updated: 2.0.0.

Alias ID depreciated

(aliasIDDep). Alias id ID of an assay that is the same or similar. a comma separated list.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 10
Part Status: depreciated. First released: depreciated. Last updated: 2.0.0.

All domains

(allDo). Domain that specifies that it could apply to al domains; biological, chemical, and physical.
Part Type: domains
Domain: allDo
Speciment ID: anySpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 15
Part Status: active. First released: active. Last updated: 2.0.0.

Alleles class

(allele). Measures and methods related to alleles.
Part Type: classes
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: allele
Nomenclature: allele
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Allele unit set

(alleleUnitSet). Unit set for alleles.
Part Type: unitSets
Domain: naDomain
Speciment ID: siSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: alleleUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Access to all org

(allOrgs). If this is ‘no’, this data will not be available to any partner organization. If missing, data will be available to the all organizations.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: boolean
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 1
Part Status: depreciated. First released: depreciated. Last updated: 2.0.0.

Assay Limit of Detection (LOD)

(alod). The minimum level of a target consistently detectable (e.g., with 95% probability) using the assay considering only the amplification and quantification steps of RT-qPCR.
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: procGrp
Class: pcr
Nomenclature: pcr
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Aloh3 precipitation

(aloh3). Aloh3 precipitation
Part Type: categories
Domain: che
Speciment ID: naSpecimenSet
Compartment Set: waterCompartmentSet
Group: procGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Assay method id default depreciated

(amDefDep). Used as default when a new measurement is created for this lab. See ID in AssayMethod table. Deprecated as of version 2, please avoid use. Specify in type, or contact the PHES-ODM research team to add your specific item via a github issue (https://github.com/Big-Life-Lab/PHES-ODM/issues), or at phesd_odm@ohri.ca
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: depreciated. First released: depreciated. Last updated: 2.0.0.

Amicon ultrafiltration

(amiconUf). Amicon ultrafiltration
Part Type: categories
Domain: che
Speciment ID: naSpecimenSet
Compartment Set: waterCompartmentSet
Group: procGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Amicon filter, extract with MP96

(amiMP96). Nucleaic acid extraction, usually used for the liquid fraction of a wastewater sample, using amicon filtration and using an MP96 for final extraction.
Part Type: categories
Domain: bio
Speciment ID: naSpecimenSet
Compartment Set: waterCompartmentSet
Group: procGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 10
Part Status: active. First released: active. Last updated: 2.0.0.

Amplicon sequencing

(amp). Specifies the amplicon strategy for genetic sequencing
Part Type: categories
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 10
Part Status: active. First released: active. Last updated: 2.0.0.

Anti-microbial resistance Group

(amrGrp). The group for measures and methods pertaining to anti-microbial resistant microbes (general).
Part Type: groups
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: amrGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 50
Part Status: active. First released: active. Last updated: 2.1.0.

Anaplasma Group

(anaplasmaGrp). A group of measures/methods related to anaplasma bacteria. Used to describe the organism information for general measures.
Part Type: groups
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: anaplasmaGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

AND Boolean aggregation

(andBoo). “AND” aggreation. If all values in the aggregation is “TRUE” then the AND aggregation is also “TRUE”. If all values in the aggregation is “FALSE” then the AND aggregation is also “TRUE”.
Part Type: aggregations
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: NA
Missingness Set: NA
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

annealing/extension

(anneal). Describes the annealing and/or extension cycle in a PCR process.
Part Type: categories
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Any compartment set

(anyCompartmentSet). A compartment set for measures and methods in any compartment.
Part Type: compartmentSets
Domain: allDo
Speciment ID: anySpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 15
Part Status: active. First released: active. Last updated: 2.0.0.

Any specimen set

(anySpecimenSet). A specimen set that inculdes any specimen.
Part Type: specimenSets
Domain: naDomain
Speciment ID: anySpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Apache license 2.0

(apache20). The licensing for the measure or data set is managed under the Apache license 2.0.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: https://choosealicense.com/licenses/apache-2.0/
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Anaplasma phagocytophilum

(aPhagocytophilum). Anaplasma phagocytophilum
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: anaplasmaGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Area proportional sample

(areaPr). An area proportional sample. Used for surface testing.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: surfaceCompartmentSet
Group: colGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Arrival temperature

(arTemp). The temperature of a sample upon arrival at the laboratory for analysis.
Part Type: measurements
Domain: phy
Speciment ID: siSaSpecimenSet
Compartment Set: waterCompartmentSet
Group: miscMeas
Class: temperature
Nomenclature: temperature
Ontology Reference: NA
Category Set ID: NA
Unit Set: temperatureUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Use of the articV3 primer

(articV3). Initial implementation of an ARTIC bioinformatics platform for nanopore sequencing of nCoV2019 novel coronavirus; Artic Foundation v3 primer.
Part Type: categories
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: procGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Use of the articV4 primer

(articV4). Artic V4 sequencing primer for VOCs and VOIs.
Part Type: categories
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: procGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Artistic license 2.0

(artistic20). The licensing for the measure or data set is managed under the Artistic license 2.0.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: https://choosealicense.com/licenses/artistic-2.0/
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Assay ID

(asID). Links with the AssayMethod used to perform the analysis. Use instrument.ID for measures that are not viral measures. Deprecated as of version 2, please avoid use. Refer to methodID instead.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: depreciated. First released: depreciated. Last updated: 2.0.0.

Astrovirus

(astrovirus). Astrovirus
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: astrovirusGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Astrovirus Group

(astrovirusGrp). A group of measures/methods related to astroviruses. Used to describe the organism information for general measures.
Part Type: groups
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: astrovirusGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Attribute input (wide table)

(attributeInput). The partID for the attribute being used in a wide name.
Part Type: attributes
Domain: naDomain
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Attribute name (wide table)

(attributeName). The attribute referenced for the wide name.
Part Type: attributes
Domain: naDomain
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Attributes

(attributes). Attributes describe the who, where, when, and why of environmental surveillance. There are attributes for domain, specimen, compartment, or table. Attributes are one of the three main components or ways to report environment surviellence data. The other two components are measures and methods.
Part Type: partType
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Automatic composite sampling

(autoComp). A composite sampler which is automated to collect and store multiple wastewater samples across multiple time points.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: waterCompartmentSet
Group: colGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.3.

Automatic sequential sampling

(autoSeq). A composite sampler which is automated to collect and combine multiple samples of equal volume taken at a set time interval.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: waterCompartmentSet
Group: colGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.3.

Babesia

(babesia). Babesia
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: babesiaGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Babesia or Nuttallia Group

(babesiaGrp). A group of measures/methods related to babesia parasites. Used to describe the organism information for general measures.
Part Type: groups
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: babesiaGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Bacteroides 16S forward primer (HF183) (ABI)

(bact16sABIFor). Bacteroides 16S forward primer (HF183) (ABI)
Part Type: categories
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: bacteroidesGrp
Class: pcr
Nomenclature: pcr
Ontology Reference: NA
Category Set ID: NA
Unit Set: unitlessUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Bacteroides 16S probe (BacP234) (ABI)

(bact16sABIProbe). Bacteroides 16S probe (BacP234) (ABI)
Part Type: categories
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: bacteroidesGrp
Class: pcr
Nomenclature: pcr
Ontology Reference: NA
Category Set ID: NA
Unit Set: unitlessUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Bacteroides 16S reverse primer (BacR287) (ABI)

(bact16sABIRev). Bacteroides 16S reverse primer (BacR287) (ABI)
Part Type: categories
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: bacteroidesGrp
Class: pcr
Nomenclature: pcr
Ontology Reference: NA
Category Set ID: NA
Unit Set: unitlessUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Bacteria Class

(bacteria). Measures and methods relating to bacteria.
Part Type: classes
Domain: bio
Speciment ID: anySpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: bacteria
Nomenclature: bacteria
Ontology Reference: NA
Category Set ID: NA
Unit Set: bacteriaUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Bacteria unit set

(bacteriaUnitSet). Unit set for bacteria-related measurements.
Part Type: unitSets
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: bacteriaUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Bacteroides Group

(bacteroidesGrp). A group of measures/methods related to bacteroides bacteria. Used to describe the organism information for general measures.
Part Type: groups
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: bacteroidesGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Miscellaneous bacteria group

(bactMisc). A group of measures/methods related to miscellaneous bacteria. The miscallenous bacteria are often have only one measure or method. When a bacteria has many measures, they will be given their own groupID in updated dictionary versions.
Part Type: groups
Domain: bio
Speciment ID: naSpecimenSet
Compartment Set: anyCompartmentSet
Group: bactMisc
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: depreciated. First released: depreciated. Last updated: 2.2.0.

Bead beating, extract with MP96

(bbMP96). Nucleaic acid extraction, usually used for solid fraction of a wastewater sample, using bead beating and using an MP96 for final extraction.
Part Type: categories
Domain: bio
Speciment ID: naSpecimenSet
Compartment Set: waterCompartmentSet
Group: procGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 10
Part Status: active. First released: active. Last updated: 2.0.0.

Borrelia burgdorferi

(bBurgdorferi). Borrelia burgdorferi
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: borreliaGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

bcov

(bcov). Measure of the amount of bovine coronavirus.
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: betaCoronaGrp
Class: allele
Nomenclature: allele
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

bcov culture spike target

(bcovCul). Cultured bovine coronavirus is used as the recovery efficiency control target.
Part Type: categories
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: procGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

bcov spike target (unspecified)

(bcovGen). The bovine coronavirus (unspecified) is used as the recovery efficiency control target.
Part Type: categories
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: procGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

bcov vaccine spike target

(bcovVac). The bovine coronavirus vaccine is used as the recovery efficiency control target.
Part Type: categories
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: procGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Beef extract flocculation

(beeExtractFloc). Beef extract flocculation.
Part Type: categories
Domain: che
Speciment ID: naSpecimenSet
Compartment Set: waterCompartmentSet
Group: procGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Is Before

(before). Specifies that the object step or protocol occurs before the subject step or protocol in the overall protocol container. Use only for protocolRelationships table relationshipID.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Below LOD

(beLOD). Measure is below the limit of detection (LOD) for a specific analyte.
Part Type: qualityIndicators
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Measured levels below LOQ

(belowLOQ). Indicates that a measurement detected the analyte, but at levels below the limit of quantification (LOQ).
Part Type: qualityIndicators
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.3.

Beta

(beta). B.1.351
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: sarsCov2
Class: variant
Nomenclature: variant
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Beta Coronavirus Group

(betaCoronaGrp). A group of measures/methods related to beta coronaviruses. Used to describe the organism information for general measures.
Part Type: groups
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: betaCoronaGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Biologic

(bio). A living organism or biological substance.
Part Type: domains
Domain: bio
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Digital droplet emulsification PCR

(bioRadDdpcr). Describes a PCR analysis done using BioRad’s digital droplet emulsification PCR technology.
Part Type: categories
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Beta-Lactamase Anti-microbial resistance Group

(bLacAMRGrp). The group for measures and methods pertaining to beta-lactamase-related anti-microbial resistance.
Part Type: groups
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: bLacAMRGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 50
Part Status: active. First released: active. Last updated: 2.1.0.

Cephamycin Beta-Lactamase-Resistance gene target

(blaCMY). Cephamycin Beta-Lactamase anti-microbial resistance gene target.
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: bLacAMRGrp
Class: allele
Nomenclature: allele
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: https://www.mediterranee-infection.com/acces-ressources/base-de-donnees/arg-annot-2/
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

CTX-M Beta-Lactamase-Resistance gene target

(blaCTXM1). CTX-M Beta-Lactamase anti-microbial resistance gene target.
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: bLacAMRGrp
Class: allele
Nomenclature: allele
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: https://www.mediterranee-infection.com/acces-ressources/base-de-donnees/arg-annot-2/
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Impenemase (IMP) Beta-Lactamase-Resistance gene target

(blaIMP). Impenemase (IMP) Beta-Lactamase anti-microbial resistance gene target.
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: bLacAMRGrp
Class: allele
Nomenclature: allele
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: https://www.mediterranee-infection.com/acces-ressources/base-de-donnees/arg-annot-2/
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Klebsiella pneumoniae Carbapenam (KPC) Beta-Lactamase-Resistance gene target

(blaKPC). Klebsiella pneumoniae Carbapenam (KPC) Beta-Lactamase anti-microbial resistance gene target.
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: bLacAMRGrp
Class: allele
Nomenclature: allele
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: https://www.mediterranee-infection.com/acces-ressources/base-de-donnees/arg-annot-2/
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

New-Delhi Metallo- (NDM) Beta-Lactamase-Resistance gene target

(blaNDM). New-Delhi Metallo- (NDM) Beta-Lactamase anti-microbial resistance gene target.
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: bLacAMRGrp
Class: allele
Nomenclature: allele
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: https://www.mediterranee-infection.com/acces-ressources/base-de-donnees/arg-annot-2/
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

OXA-type Beta-Lactamase-Resistance gene target

(blaOXA48). OXA-type Beta-Lactamase anti-microbial resistance gene target.
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: bLacAMRGrp
Class: allele
Nomenclature: allele
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: https://www.mediterranee-infection.com/acces-ressources/base-de-donnees/arg-annot-2/
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

SHV Beta-Lactamase-Resistance gene target

(blaSHV). SHV-type Beta-Lactamase anti-microbial resistance gene target.
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: bLacAMRGrp
Class: allele
Nomenclature: allele
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: https://www.mediterranee-infection.com/acces-ressources/base-de-donnees/arg-annot-2/
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

TEM Beta-Lactamase-Resistance gene target

(blaTEM). TEM-type Beta-Lactamase anti-microbial resistance gene target.
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: bLacAMRGrp
Class: allele
Nomenclature: allele
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: https://www.mediterranee-infection.com/acces-ressources/base-de-donnees/arg-annot-2/
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Verone Integron-Encoded Metallo- (VIM) Beta-Lactamase-Resistance-resistance gene target

(blaVIM). Verone Integron-Encoded Metallo- (VIM) Beta-Lactamase anti-microbial resistance gene target.
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: bLacAMRGrp
Class: allele
Nomenclature: allele
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: https://www.mediterranee-infection.com/acces-ressources/base-de-donnees/arg-annot-2/
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Binary Large Object (BLOB) data type

(blob). The data type for Binary Large Object (BLOB) data. Only used for the dictionary entries of parts.
Part Type: dataTypes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 15
Part Status: active. First released: active. Last updated: 2.0.0.

Breadth of coverage (>=5x depth)

(boc). Positions with read depth greater or equal to 5. Report as percentage of positions.
Part Type: units
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: integer
Missingness Set: NA
Minimum Value: 0
Maximum Value: 100
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

5-Day carbonaceous biochemical oxygen demand

(bod5c). The¬¨‚Ä†quantity¬¨‚Ä†of¬¨‚Ä†oxygen¬¨‚Ä†utilized¬¨‚Ä†for the biochemical¬¨‚Ä†degradation¬¨‚Ä†of¬¨‚Ä†organic matter¬¨‚Ä†under¬¨‚Ä†standard¬¨‚Ä†laboratory procedures¬¨‚Ä†in five (5) days in the¬¨‚Ä†presence of a¬¨‚Ä†nitrification inhibitor,¬¨‚Ä†expressed¬¨‚Ä†in¬¨‚Ä†milligrams per litre¬¨‚Ä†(mg/l).
Part Type: measurements
Domain: bio
Speciment ID: siSpecimenSet
Compartment Set: waterCompartmentSet
Group: miscMeas
Class: standardConc
Nomenclature: standardConc
Ontology Reference: NA
Category Set ID: NA
Unit Set: stdConcentrationUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: https://doi.org/10.1002/wer.1541
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

5-day total biochemical oxygen demand

(bod5t). 5 day total biochemical oxygen demand.
Part Type: measurements
Domain: bio
Speciment ID: siSpecimenSet
Compartment Set: waterCompartmentSet
Group: miscMeas
Class: standardConc
Nomenclature: standardConc
Ontology Reference: NA
Category Set ID: NA
Unit Set: stdConcentrationUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: https://doi.org/10.1002/wer.1541
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Boolean data type

(boolean). The data type for boolean/binary data. Encoded as ‘TRUE’ or ‘FALSE’
Part Type: dataTypes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 15
Part Status: active. First released: active. Last updated: 2.0.0.

Boolean aggregation set

(booleanAggrSet). Aggreagation set for boolean.
Part Type: aggregationSets
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Boolean value set

(booleanSet). Set that contains the valid possible values for a boolean measure (TRUE or FALSE).
Part Type: mmaSets
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: booleanSet
Unit Set: NA
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Borrelia burgdorferi or Lyme Disease Group

(borreliaGrp). A group of measures/methods related to Borrelia burgdorferi or Lyme Disease. Used to describe the organism information for general measures.
Part Type: groups
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: borreliaGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Bovine respiratory syncytial virus group

(brsv). Bovine respiratory syncytial virus.
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: rsvGrp
Class: allele
Nomenclature: allele
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

brsv culture spike target

(brsvCul). Cultured bovine respiratory syncytial virus (BRSV) is used as the recovery efficiency control target.
Part Type: categories
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: procGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

BRSV-N

(brsvN). bovine respiratory syncytial virus capsid protein gene region
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: rsvGrp
Class: allele
Nomenclature: allele
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

brsv vaccine spike target

(brsvVac). The bovine respiratory syncytial virus (BRSV) vaccine is used as the recovery efficiency control target.
Part Type: categories
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: procGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Brucella

(brucella). Brucella
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: brucellaGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Brucella Group

(brucellaGrp). A group of measures/methods related to brucella bacteria. Used to describe the organism information for general measures.
Part Type: groups
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: brucellaGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

BSD Zero-Clause license

(bsd0). The licensing for the measure or data set is managed under the BSD Zero-Clause license.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: https://choosealicense.com/licenses/0bsd/
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

BSD 2-clause “Simplified” license

(bsd2Clause). The licensing for the measure or data set is managed under the BSD 2-clause “Simplified” license.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: https://choosealicense.com/licenses/bsd-2-clause/
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

BSD 3-clause “New” or “Revised” license

(bsd3Clause). The licensing for the measure or data set is managed under the BSD 3-clause “New” or “Revised” license.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: https://choosealicense.com/licenses/bsd-3-clause/
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

BSD 3-clause Clear license

(bsd3ClauseClear). The licensing for the measure or data set is managed under the BSD 3-clause Clear license.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: https://choosealicense.com/licenses/bsd-3-clause-clear/
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

BSD 4-clause “Original” or “Old” license

(bsd4Clause). The licensing for the measure or data set is managed under the BSD 4-clause “Original” or “Old” license.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: https://choosealicense.com/licenses/bsd-4-clause/
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Boost Software License 1.0

(bsl10). The licensing for the measure or data set is managed under the Boost Software License 1.0.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: https://choosealicense.com/licenses/bsl-1.0/
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Branch sewer pipleline

(bSwrPpl). Specifies a site type that is collection pipe that run lateral to other municpal sewer lines, allowing drainage into the main sewer.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: waterCompartmentSet
Group: colGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Building cleanout

(buildCO). Specifies a site type that is a capped pipe that connects to a building’s main sewer line.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: waterCompartmentSet
Group: colGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Bus

(bus). A large motor vehicle carrying passengers by road, typically one serving the public on a fixed route and for a fare.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: anyCompartmentSet
Group: colGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.3.

Bus Station

(busStat). A terminal where buses arrive and depart.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: anyCompartmentSet
Group: colGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.3.

Caffeine

(caff). Caffeine (usually measured as a human fecal chemical indicator)
Part Type: measurements
Domain: che
Speciment ID: siSaSpecimenSet
Compartment Set: waterCompartmentSet
Group: procGrp
Class: standardConc
Nomenclature: standardConc
Ontology Reference: NA
Category Set ID: NA
Unit Set: stdConcentrationUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Campylobacter

(camp). Campylobacter.
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: campGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: bacteriaUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.1.0.

Campylobacter Group

(campGrp). A group of measures/methods related to campylobacter bacteria. Used to describe the organism information for general measures.
Part Type: groups
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: campGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Capacity class

(capacity). Measures and methods relating to capacity.
Part Type: classes
Domain: phy
Speciment ID: siSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: capacity
Nomenclature: capacity
Ontology Reference: NA
Category Set ID: NA
Unit Set: capacityUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Capacity unit set

(capacityUnitSet). Unit set for capacity measurements.
Part Type: unitSets
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: waterCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: capacityUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Capital city endonym

(capitalEndonym). The name locals use for their country‚Äö√Ñ√¥s capital. Preprogrammed into dictionary tables, not editable by users.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 75
Part Status: active. First released: active. Last updated: 2.1.0.

Capital city exonym

(capitalExonym). The English name foreigners use for the country‚Äö√Ñ√¥s capital. Preprogrammed into dictionary tables, not editable by users.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 75
Part Status: active. First released: active. Last updated: 2.1.0.

Case report date

(caRepDate). Date that the numbers were reported publicly. Typically, reported data and this measure is most commonly reported and used.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: NA
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: depreciated. First released: depreciated. Last updated: 2.0.0.

Episode date of confirmed cases

(caseEpDate). Episode date is the earliest of onset, test or reported date for a confirmed case.
Part Type: units
Domain: bio
Speciment ID: poSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: datetime
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Onset date of confirmed cases

(caseOnDate). Earliest that symptoms were reported for a confirmed case. This data is often not known and reported. In lieu, episode is used.
Part Type: units
Domain: bio
Speciment ID: poSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: datetime
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Report date of confirmed cases

(caseRepDate). Date that the numbers were reported publicly for a confirmed case. Typically, reported data and this measure is most commonly reported and used.
Part Type: units
Domain: bio
Speciment ID: poSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: datetime
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Test date of confirmed cases

(caseTestDate). Date that the covid-19 test was performed for a confirmed case.
Part Type: units
Domain: bio
Speciment ID: poSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: datetime
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Categorical data type

(categorical). The data type for categorical data. Only used for the dictionary entries of parts.
Part Type: dataTypes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 15
Part Status: active. First released: active. Last updated: 2.0.0.

Candida auris

(cAuris). The yeast species Candida auris, or C. auris.
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: cAurisGrp
Class: bacteria
Nomenclature: bacteria
Ontology Reference: NA
Category Set ID: NA
Unit Set: bacteriaUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.1.0.

Candida auris Group

(cAurisGrp). A group of measures/methods related to Candida auris. Used to describe the organism information for general measures.
Part Type: groups
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: cAurisGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Carbapenemase-encoding genes

(cbp). Carbapenemase-encoding genes.
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: amrGrp
Class: pcr
Nomenclature: pcr
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.1.0.

Creative Commons Zero v1.0 Universal

(cc010). The licensing for the measure or data set is managed under the Creative Commons Zero v1.0 Universal.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: https://choosealicense.com/licenses/cc0-1.0/
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Creative Commons Attribution 4.0

(ccby40). The licensing for the measure or data set is managed under the Creative Commons Attribution 4.0.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: https://choosealicense.com/licenses/cc-by-4.0/
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

CC BY-NC 4.0 license

(ccbync40). The licensing for the measure or data set is managed under the Creative Commons 4.0 by-attribution, non-commercial international license.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: https://creativecommons.org/licenses/by-nc/4.0/deed.en
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.3.

CC BY-NC-SA 4.0 license

(ccbyncsa40). The licensing for the measure or data set is managed under the Creative Commons 4.0 by-attribution, non-commercial, and sharealike international license.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: https://creativecommons.org/licenses/by-nc-sa/4.0/deed.en
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.3.

Creative Commons Attribution ShareAlike 4.0

(ccbysa40). The licensing for the measure or data set is managed under the Creative Commons Attribution ShareAlike 4.0.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: https://choosealicense.com/licenses/cc-by-sa-4.0/
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Long-term acute care hospital

(ccc). Acute care hospitals, or complex contuing care, that provide care for patients with average length of stay longer than 25 days.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Child day care

(cdc). Child day care facility.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: anyCompartmentSet
Group: colGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Sarbeco_E forward primer (IDT)

(cdcCovEIDTFor). Sarbeco_E forward primer (IDT)
Part Type: categories
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: sarsCov2
Class: pcr
Nomenclature: pcr
Ontology Reference: NA
Category Set ID: NA
Unit Set: unitlessUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Sarbeco_E probe (IDT)

(cdcCovEIDTProbe). Sarbeco_E probe (IDT)
Part Type: categories
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: sarsCov2
Class: pcr
Nomenclature: pcr
Ontology Reference: NA
Category Set ID: NA
Unit Set: unitlessUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Sarbeco_E reverse primer (IDT)

(cdcCovEIDTRev). Sarbeco_E reverse primer (IDT)
Part Type: categories
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: sarsCov2
Class: pcr
Nomenclature: pcr
Ontology Reference: NA
Category Set ID: NA
Unit Set: unitlessUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

2019-nCoV_N1 forward primer (IDT)

(cdcCovN1IDTFor). 2019-nCoV_N1 forward primer (IDT)
Part Type: categories
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: sarsCov2
Class: pcr
Nomenclature: pcr
Ontology Reference: NA
Category Set ID: NA
Unit Set: unitlessUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

2019-nCoV_N1 probe (IDT)

(cdcCovN1IDTProbe). 2019-nCoV_N1 probe (IDT)
Part Type: categories
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: sarsCov2
Class: pcr
Nomenclature: pcr
Ontology Reference: NA
Category Set ID: NA
Unit Set: unitlessUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

2019-nCoV_N1 reverse primer (IDT)

(cdcCovN1IDTRev). 2019-nCoV_N1 reverse primer (IDT)
Part Type: categories
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: sarsCov2
Class: pcr
Nomenclature: pcr
Ontology Reference: NA
Category Set ID: NA
Unit Set: unitlessUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

2019-nCoV_N2 forward primer (IDT)

(cdcCovN2IDTFor). 2019-nCoV_N2 forward primer (IDT)
Part Type: categories
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: sarsCov2
Class: pcr
Nomenclature: pcr
Ontology Reference: NA
Category Set ID: NA
Unit Set: unitlessUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

2019-nCoV_N2 probe (IDT)

(cdcCovN2IDTProbe). 2019-nCoV_N2 probe (IDT)
Part Type: categories
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: sarsCov2
Class: pcr
Nomenclature: pcr
Ontology Reference: NA
Category Set ID: NA
Unit Set: unitlessUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

2019-nCoV_N2 reverse primer (IDT)

(cdcCovN2IDTRev). 2019-nCoV_N2 reverse primer (IDT)
Part Type: categories
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: sarsCov2
Class: pcr
Nomenclature: pcr
Ontology Reference: NA
Category Set ID: NA
Unit Set: unitlessUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

2019-nCoV_N3 forward primer (IDT)

(cdcCovN3IDTFor). 2019-nCoV_N3 forward primer (IDT)
Part Type: categories
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: sarsCov2
Class: pcr
Nomenclature: pcr
Ontology Reference: NA
Category Set ID: NA
Unit Set: unitlessUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

2019-nCoV_N3 probe (IDT)

(cdcCovN3IDTProbe). 2019-nCoV_N3 probe (IDT)
Part Type: categories
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: sarsCov2
Class: pcr
Nomenclature: pcr
Ontology Reference: NA
Category Set ID: NA
Unit Set: unitlessUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

2019-nCoV_N3 reverse primer (IDT)

(cdcCovN3IDTRev). 2019-nCoV_N3 reverse primer (IDT)
Part Type: categories
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: sarsCov2
Class: pcr
Nomenclature: pcr
Ontology Reference: NA
Category Set ID: NA
Unit Set: unitlessUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Clostridium difficile

(cDiff). Clostridium difficile
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: clostridiumGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Corynebacterium diphtheriae

(cDip). Corynebacterium diphtheriae
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: diptheriaGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

CeCILL Free Software License Agreement v2.1

(cecill21). The licensing for the measure or data set is managed under the CeCILL Free Software License Agreement v2.1.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: https://choosealicense.com/licenses/cecill-2.1/
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Degrees Celcius

(cel). Degrees Celsius.
Part Type: units
Domain: phy
Speciment ID: siSaSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: float
Missingness Set: NA
Minimum Value: -60
Maximum Value: 100
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Centrifugation

(cent). Describes solid separation from a wastewater sample via centrifugation. Likely connected to other method steps prior to analysis.
Part Type: categories
Domain: allDo
Speciment ID: saSpecimenSet
Compartment Set: waterCompartmentSet
Group: procGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Centricon ultrafiltration

(centriconUf). Centricon ultrafiltration.
Part Type: categories
Domain: che
Speciment ID: naSpecimenSet
Compartment Set: waterCompartmentSet
Group: procGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Centrifugation speed

(centSpeed). Centrifugation speed
Part Type: measurements
Domain: phy
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: procGrp
Class: speed
Nomenclature: speed
Ontology Reference: NA
Category Set ID: NA
Unit Set: speedUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Ceres nanotrap

(ceres). Ceres nanotrap.
Part Type: categories
Domain: che
Speciment ID: naSpecimenSet
Compartment Set: waterCompartmentSet
Group: procGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

CFU per 100 ml

(cfu). Colony forming units per 100 ml of filtered sample.
Part Type: units
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: float
Missingness Set: NA
Minimum Value: 0
Maximum Value: NA
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Changes column

(changes). A column for recording the changes from a previous version. Use this column as a short-hand change log for dictionary development.
Part Type: tableSupport
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

character length

(charLength). The number of characters used for the wide names.
Part Type: attributes
Domain: naDomain
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Chemical

(che). A chemical compound.
Part Type: domains
Domain: che
Speciment ID: anySpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Chemagic viral dna/rna 300 kit

(chemVir). Nucleic acid extraction performed using the chemagic viral dna/rna 300 kit.
Part Type: categories
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: procGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Chikungunya Group

(chikungunyaGrp). A group of measures/methods related to chikungunya virus. Used to describe the organism information for general measures.
Part Type: groups
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: chikungunyaGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Chikungunya virus (CHIKV)

(chikv). Chikungunya virus (CHIKV)
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: chikungunyaGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Child relationship

(child). Indicated that this is a sample generated from (an)other sample(s) either because of pooling or sub-sampling.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Chlamydia

(chlamydia). Chlamydia
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: chlamydiaGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Chlamydia Group

(chlamydiaGrp). A group of measures/methods related to chlamydia bacteria. Used to describe the organism information for general measures.
Part Type: groups
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: chlamydiaGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

City

(city). The city where a site or organization is located; part of the address.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Campylobacter jejuni bacteria

(cJejuni). Campylobacter jejuni gene target/measurement
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: campGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: bacteriaUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: https://www.sciencedirect.com/science/article/pii/S0882401017303728?via%3Dihub
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.1.0.

Composite Key

(cK). Composite key for a table. All report tables have a primary key - the composite key acts as a primary key, but it prouced as a combination of other fields. Each row in a report table has unique identifier recorded in the primary key/composite key.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.2.

Clarified sample

(clari). Clarified sample.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: waterCompartmentSet
Group: procGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Class

(class). A unique identifier for a class, which is akin to a sub-group; it’s a way of grouping parts within a given group. A group can have one or more classes to describe different parts of the class. Currently, class is only used for biologics. For example, SARS-CoV-2 is a group of measures with the following classes of allele, variant, mutation, sequence, and protein.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Classes

(classes). A class is a collection of one or more related measures or methods within a group. A group can have one more more classes to describe different parts or the class.
Part Type: partType
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Clostridium Group

(clostridiumGrp). A group of measures/methods related to clostridium bacteria. Used to describe the organism information for general measures.
Part Type: groups
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: clostridiumGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Cloudy

(cloudy). Qualitative category for the weather measure, specifying an overcast day with no rain.
Part Type: categories
Domain: phy
Speciment ID: siSpecimenSet
Compartment Set: anyCompartmentSet
Group: siteFeat
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Centimetres

(cm). Unit part for the SI unit of centimetres.
Part Type: units
Domain: phy
Speciment ID: siSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: float
Missingness Set: NA
Minimum Value: 0
Maximum Value: NA
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Contact table Shorthand

(co). The abbreviated short name used to reference the The table that contains information about a contact; a person who is the contact of a site or laboratory. table
Part Type: shortName
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.2.

Carbon Dioxide

(co2). A measure of an amount or concentraion of carbon dioxide.
Part Type: measurements
Domain: che
Speciment ID: siSaSpecimenSet
Compartment Set: waterCompartmentSet
Group: miscMeas
Class: gas
Nomenclature: gas
Ontology Reference: NA
Category Set ID: NA
Unit Set: dissGasUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Chemical Oxygen Demand

(cod). Chemical oxygen demand.
Part Type: measurements
Domain: che
Speciment ID: siSaSpecimenSet
Compartment Set: waterCompartmentSet
Group: waterQualityGrp
Class: standardConc
Nomenclature: standardConc
Ontology Reference: NA
Category Set ID: NA
Unit Set: stdConcentrationUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Time from collection to storage

(col2Frdg). The amount of time between sample collection and the samples placement in stable storage/refrigeration.
Part Type: measurements
Domain: naDomain
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: procGrp
Class: time
Nomenclature: time
Ontology Reference: NA
Category Set ID: NA
Unit Set: timeUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: integer
Missingness Set: genMissingnessSet
Minimum Value: 0
Maximum Value: NA
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Colistin Anti-microbial resistance group

(colAMRGrp). The group for measures and methods pertaining to colistin-related anti-microbial resistance.
Part Type: groups
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: colAMRGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 50
Part Status: active. First released: active. Last updated: 2.1.0.

Collection group

(colGrp). A group of measurement-like attributes related to sample collection.
Part Type: groups
Domain: allDo
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: colGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Colistin resistance

(colis). Colistin-resistant bacteria.
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: amrGrp
Class: pcr
Nomenclature: pcr
Ontology Reference: NA
Category Set ID: NA
Unit Set: bacteriaUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.1.0.

Collection date time

(collDT). For grab samples this is the date, time and timezone the sample was taken.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: datetime
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Collection date time end

(collDTEnd). For integrated time average samples this is the date, time and timezone the sample was finished being taken.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: datetime
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Collection date time start

(collDTStart). For integrated time averaged samples this is the date, time and timezone the sample was started being taken.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: datetime
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Sample collection set

(collectSet). Methods for collection samples. Sample collection methods include water, air, and surface. See the attribute `Compartment set` of the sample collection method.
Part Type: mmaSets
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: collectSet
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Collection number

(collNum). The number of subsamples that were combined to create the sample. Use NA for continuous, proportional or passive sampling.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: colGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: integer
Missingness Set: genMissingnessSet
Minimum Value: 1
Maximum Value: NA
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Collection period and number

(collNumPer). Composite collection number.period. This a composite measure that combines `collection period` (collPer) and `collection number` (collNum). Collection number and period can be used to reduce the number of table headings during data collection. In data storage, `collNum` and `collPeriod` should be transformed to `collPer` and `collNum`. For Grab sample, Surface swab, or Area proportional sample just enter 1

In case of Composite, Flow-proportional collection, the number of subsamples followed by a dot, followed by the period of the sampling, in hours. For example, for 4 composite subsamples covering a 8 hours period, the entry would be 4.2 For time-proportional 24 subsamples collected every hour, the entry would be 24.1 For volume-proportional, the entry for 24 subsamples collected over 24 hours should be 24.24, in this case the period part of the entry should be understood as the total collection time instead of the periodicity of the collection.

For a COSCA ball or Moore swab collecting for 24 hours, the entry would be 1.24
Part Type: attributes
Domain: naDomain
Speciment ID: saSpecimenSet
Compartment Set: naCompartmentSet
Group: colGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 6
Part Status: active. First released: active. Last updated: 2.0.0.

Collection period

(collPer). Collection period. The time period over which the sample was collected, in hours. Alternatively, use collectionStart and collectionEnd. Examples: 1 hour, 6 hours, 24 hours
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: colGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: float
Missingness Set: genMissingnessSet
Minimum Value: 1
Maximum Value: NA
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Sample collection type

(collType). The type of collection.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: anyCompartmentSet
Group: colGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: collectSet
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 12
Part Status: active. First released: active. Last updated: 2.0.0.

Co-located sample

(colocated). Second or multiples samples collected at same location but different time (water, air) or at a nearby location (soil, sediment). Sent blind to laboratory.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Column name depreciiated

(columnNameDep). Name for the column Depreciated in ODM version 2. Look-up tables are now incoprated into parts and sets.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: depreciated. First released: depreciated. Last updated: 2.0.0.

Commercial facility - not specified

(commFacOth). Specifies a site type which is a commercial facility/worksite that is not otherwise captured or described in the geotype set.
Part Type: categories
Domain: naDomain
Speciment ID: siSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Composite sample - archival

(comp). A composite sample, usually generated by an autosampler. This is intended for use in updating and mapping archival data into the newest version of the ODM. Generally, autosamplers do time or flow-proportional sampling, and so those collection methods should be used instead. This is only for composite/autosampler samples where these additional details have not yet been specified. Use collectionPeriod to describe how many hours the sample was taken, and collectionNum to record the number of samples.
Part Type: categories
Domain: naDomain
Speciment ID: saSpecimenSet
Compartment Set: waterCompartmentSet
Group: colGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Composite grab sample of 3

(comp3). A grab-composite sample composed of 3 separate grab samples.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: waterCompartmentSet
Group: colGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: NA
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: depreciated. First released: depreciated. Last updated: 2.0.0.

Composite grab sample of 3 depreciate

(comp3dep). A grab-composite sample composed of 3 separate grab samples. Deprecated in version 2, please do not use.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: waterCompartmentSet
Group: colGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: NA
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: depreciated. First released: depreciated. Last updated: 2.0.0.

Composite 3hr grab sample

(comp3h). A 3-hour composite with 3 grab samples each taken once per hour, generally manually performed.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: waterCompartmentSet
Group: colGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: NA
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: depreciated. First released: depreciated. Last updated: 2.0.0.

Composite 3hr grab sample depreciate

(comp3hdep). A 3-hour composite with 3 grab samples each taken once per hour, generally manually performed. Deprecated in version 2, please do not use.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: waterCompartmentSet
Group: colGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: NA
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: depreciated. First released: depreciated. Last updated: 2.0.0.

Composite 8hr grab sample depreciated

(comp8h). An 8-hour composite with 8 grab samples each taken once per hour, generally manually performed. Deprecated in version 2, please do not use.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: waterCompartmentSet
Group: colGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: NA
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: depreciated. First released: depreciated. Last updated: 2.0.0.

Composite 8hr grab sample deprecated

(comp8hDep). A 8-hour composite with 8 grab samples each taken once per hour, generally manually performed.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: waterCompartmentSet
Group: colGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: NA
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: depreciated. First released: depreciated. Last updated: 2.0.0.

Compartment

(compartment). The attribute identifying the substance from which where a sample was taken. For more information, see partID = compartment.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Compartment input (wide table)

(compartmentInput). The partID for the compartment being used in a wide name.
Part Type: attributes
Domain: naDomain
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Compartment name (wide table)

(compartmentName). The compartment referenced for the wide name.
Part Type: attributes
Domain: naDomain
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Compartments

(compartments). The substance from which a sample was taken. For example, wastewater has component of “water”. Compartments are attributes of measures, methods, units, and aggregations.
Part Type: partType
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Compartment Set Header

(compartmentSet). An idenfication of a set of compartments that can be applied for a measure or method.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.2.

Compartment sets

(compartmentSets). Sets of compartments. Compartment sets are used to identify when a measure can be recorded for more than one compartment. For example, SARS-CoV-2 can be measured in people (humans), water, surface, or air.
Part Type: partType
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 15
Part Status: active. First released: active. Last updated: 2.0.0.

Composting toilet

(compToi). A self-contained toilet system wherein human waste is designed to be composted. Usually with the addition of secondary materials, like sawdust.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: waterCompartmentSet
Group: colGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.3.

Concentration measure

(conc). Measurement of concentration (generalized) - designed for describing protocols.
Part Type: measurements
Domain: che
Speciment ID: siSaSpecimenSet
Compartment Set: anyCompartmentSet
Group: miscMeas
Class: standardConc
Nomenclature: standardConc
Ontology Reference: NA
Category Set ID: NA
Unit Set: stdConcentrationUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Is concurrent to

(concurrent). Specifies that the object step or protocol occurs at the same time as the subject step or protocol in the overall protocol container. Use only for protocolRelationships table relationshipID.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Sample volume after concentration

(concVol). The total volume of a sample after the concentration step.
Part Type: measurements
Domain: phy
Speciment ID: saSpecimenSet
Compartment Set: waterCompartmentSet
Group: procGrp
Class: standardConc
Nomenclature: standardConc
Ontology Reference: NA
Category Set ID: NA
Unit Set: volumeUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: integer
Missingness Set: genMissingnessSet
Minimum Value: 0
Maximum Value: NA
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Water conductivity

(cond). Measurement of conductivity of sample or site.
Part Type: measurements
Domain: phy
Speciment ID: siSaSpecimenSet
Compartment Set: waterCompartmentSet
Group: siteFeat
Class: conductivity
Nomenclature: conductivity
Ontology Reference: NA
Category Set ID: NA
Unit Set: conductivityUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Conductivity class

(conductivity). Measures and methods related to conductivity.
Part Type: classes
Domain: phy
Speciment ID: siSaSpecimenSet
Compartment Set: waterCompartmentSet
Group: naGroup
Class: conductivity
Nomenclature: conductivity
Ontology Reference: NA
Category Set ID: NA
Unit Set: conductivityUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Conductivity unit set

(conductivityUnitSet). Unit set related to conductivity measurements.
Part Type: unitSets
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: conductivityUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Cone-shaped sampling

(cone). Intrument type is a grab sample that has a controlled valve that opens to take a sample from a specific depth, then closes to bring the sample out.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: waterCompartmentSet
Group: colGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.3.

Number of confirmed cases

(conf). Number of confirmed cases.
Part Type: units
Domain: bio
Speciment ID: poSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: integer
Missingness Set: NA
Minimum Value: 0
Maximum Value: NA
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Number of confirmed cases by episode date

(confEp). Number of confirmed cases of a given disease, totaled by episode date. Episode date is the earliest of onset, test or reported date for a confirmed case.
Part Type: units
Domain: bio
Speciment ID: poSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: integer
Missingness Set: NA
Minimum Value: 0
Maximum Value: NA
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Number of confirmed Cases Onset date

(confOn). Number of confirmed cases of a given disease, totaled by onset date. Onset date is the earliest date that symptoms were reported for a confirmed case. This data is often not known and reported. In lieu, episode is used.
Part Type: units
Domain: bio
Speciment ID: poSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: integer
Missingness Set: NA
Minimum Value: 0
Maximum Value: NA
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Number of confirmed cases by report date

(confRep). Number of confirmed cases of a given disease, totaled by report date. Report date is the date that the numbers were reported publicly for a confirmed case.
Part Type: units
Domain: bio
Speciment ID: poSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: integer
Missingness Set: NA
Minimum Value: 0
Maximum Value: NA
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Number of confirmed cases test date

(confTest). Number of confirmed cases of a given disease, totaled by test date. Test date is the date that the covid-19 test was performed for a confirmed case.
Part Type: units
Domain: bio
Speciment ID: poSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: integer
Missingness Set: NA
Minimum Value: 0
Maximum Value: NA
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Contact ID

(contactID). A unique identifier for a given contact person.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Contact name

(contactName). Contact person or group, for the lab. Depreciated in ODM version 2. see ‘name’
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 100
Part Status: depreciated. First released: depreciated. Last updated: 2.0.0.

Contact table

(contacts). The table that contains information about a contact; a person who is the contact of a site or laboratory. adapt from verson 1 documentation
Part Type: tables
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: programDescr
Nomenclature: programDescr
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Contacts table column order

(contactsOrder). Specifies the order of the columns in a Contacts table.
Part Type: tableSupport
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: integer
Missingness Set: NA
Minimum Value: 1
Maximum Value: NA
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Contact table required headers

(contactsRequired). Specifies the columns required in a Contacts table.
Part Type: tableSupport
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Contact table set

(contactTableSet). Tables are where measures, methods and attributes are recorded. Tables represent the main entities of the environmental surveillance.
Part Type: dictSets
Domain: naDomain
Speciment ID: saSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Contact phone

(coPhone). Contact phone number, for the lab.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 10
Maximum Length: 12
Part Status: active. First released: active. Last updated: 2.0.0.

Core sampling

(core). Intrument type is a grab sampler that captures a vertical section of the substrate matrix of fecal sludge.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: waterCompartmentSet
Group: colGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.3.

Correctional facility

(corFcil). Correctional facility
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: anyCompartmentSet
Group: colGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

COSCa ball

(cosca). COSCa passive sampling device. Use collectionPeriod to describe how many hours the ball was used to collect the sample
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: waterCompartmentSet
Group: colGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: https://pubs.rsc.org/en/content/articlelanding/2021/ew/d1ew00207d
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Countries look-up tables

(countries). Look up table for the possible country inputs.
Part Type: tables
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: lookup
Nomenclature: lookup
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.1.0.

Countries table column order

(countriesOrder). Specifies the order of the columns in the countries table.
Part Type: tableSupport
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: integer
Missingness Set: NA
Minimum Value: 1
Maximum Value: NA
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.1.0.

Counries table required headers

(countriesRequired). Required headers in the countries table.
Part Type: tableSupport
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.1.0.

Country

(country). The country where a site or organization is located; part of the address.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Country endonym

(countryEndonym). The name locals use for their country. Preprogrammed into dictionary tables, not editable by users.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 75
Part Status: active. First released: active. Last updated: 2.1.0.

Country exonym

(countryExonym). The English name foreigners use for the country. Preprogrammed into dictionary tables, not editable by users.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 75
Part Status: active. First released: active. Last updated: 2.1.0.

Countries or sovereign states

(countryLevel). Countries or sovereign states
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: nrNAMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: depreciated. First released: depreciated. Last updated: 2.1.0.

Districts, counties, regions

(countyLevel). Districts, counties, regions
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: nrNAMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: depreciated. First released: depreciated. Last updated: 2.1.0.

Covid-19

(cov). Covid-19 infection. Any form of Covid-19 human infetion - including testing for Covid-19, symptomatic Covid-19, asymptomatic Covid-19, hospitalized Covid-19, long-Covid-19, etc. If needed, define the specific form Covid-19 with units. See populationUnits.
Part Type: measurements
Domain: bio
Speciment ID: poSpecimenSet
Compartment Set: humanCompartmentSet
Group: sarsCov2
Class: disease
Nomenclature: disease
Ontology Reference: NA
Category Set ID: NA
Unit Set: populationUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

SARS-CoV-2 measure

(cov2Me). Measure the amount of SARS-CoV-2 virus. This measure should only be used if there is no other SARS-CoV-2 measure. See groupID = sarsCov2. Use a note to describe the specific measure used.
Part Type: measurements
Domain: bio
Speciment ID: anySpecimenSet
Compartment Set: anyCompartmentSet
Group: sarsCov2
Class: allele
Nomenclature: allele
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

SARS-CoV-2-B.1.1.7

(covB117). Variant B.1.1.7 of the SARS-CoV-2 virus.
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: sarsCov2
Class: variant
Nomenclature: variant
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

SARS-CoV-2-B.1.351

(covB135). Variant B.1.351 of the SARS-CoV-2 virus.
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: sarsCov2
Class: variant
Nomenclature: variant
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

SARS-CoV-2-E

(covE). SARS-CoV-2 E gene.
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: sarsCov2
Class: allele
Nomenclature: allele
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

SARS-CoV-2-N1

(covN1). SARS-CoV-2 nucleocapsid gene, allele 1.
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: sarsCov2
Class: allele
Nomenclature: allele
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

SARS-CoV-2-N2

(covN2). SARS-CoV-2 nucleocapsid gene, allele 2.
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: sarsCov2
Class: allele
Nomenclature: allele
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

SARS-CoV-2-N200

(covN200). SARS-CoV-2 nucleocapsid gene, amino acids 199-202.
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: sarsCov2
Class: mutation
Nomenclature: mutation
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

SARS-CoV-2-N3

(covN3). SARS-CoV-2 nucleocapsid gene, allele 3.
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: sarsCov2
Class: allele
Nomenclature: allele
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

SARS-CoV-2-P.1

(covP1). Variant P.1 of the SARS-CoV-2 virus.
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: sarsCov2
Class: variant
Nomenclature: variant
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

SARS-CoV-2-RdRp

(covRdrp). SARS-CoV-2 RdRp gene.
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: sarsCov2
Class: allele
Nomenclature: allele
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

SARS-CoV-2 S Gene Target

(covS). S sars-cov-2 gene target
Part Type: measurements
Domain: bio
Speciment ID: poSaSpecimenSet
Compartment Set: anyCompartmentSet
Group: sarsCov2
Class: allele
Nomenclature: allele
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.3.

Clostridium perfringens

(cPerfrigens). Clostridium perfringens
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: clostridiumGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Covid-19 population measurement date

(cphDate). date of reporting for covid-19 measure. Depreciated in ODM version 2. The measure identication is now measureReportID with report dates as for any measure report.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: depreciated. First released: depreciated. Last updated: 2.0.0.

Cphd ID

(cphid). Unique identifier for the table. Depreciated in ODM version 2. The measure identication is now measureReportID.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: depreciated. First released: depreciated. Last updated: 2.0.0.

crAssphage-N

(cra). crAssphage virus capsid protein gene region
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: phageGrp
Class: allele
Nomenclature: allele
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Creatinine

(crea). Creatinine (usually measured as a human fecal chemical indicator)
Part Type: measurements
Domain: che
Speciment ID: siSaSpecimenSet
Compartment Set: waterCompartmentSet
Group: procGrp
Class: standardConc
Nomenclature: standardConc
Ontology Reference: NA
Category Set ID: NA
Unit Set: stdConcentrationUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Crosswalk table set

(crosswalkTableSet). Tables used to translate to and from other environmental dictionaries and models.
Part Type: dictSets
Domain: naDomain
Speciment ID: saSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Cryptosporidium

(cryptosporidium). Cryptosporidium
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: cryptosporidiumGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Cryptosporidium Group

(cryptosporidiumGrp). A group of measures/methods related to cryptosporidium parasites. Used to describe the organism information for general measures.
Part Type: groups
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: cryptosporidiumGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Cycle threshold or quantification cycle (Ct or Cq)

(ct). Cycle thresholds in a PCR assay.
Part Type: units
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: standardCurve
Nomenclature: standardCurve
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: float
Missingness Set: genMissingnessSet
Minimum Value: 0
Maximum Value: NA
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Countries look-up tables Shorthand

(cu). The abbreviated short name used to reference the Look up table for the possible country inputs. table
Part Type: shortName
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.2.

Cumulative count

(cuCo). The cumulative count of cases of a given disease. Aggregation for a population or disease measure to explain population-level clinical effects.
Part Type: aggregations
Domain: naDomain
Speciment ID: poSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Custody Contact ID

(custodyCont). A unique identifier for data custodians.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Data custodian ID

(custodyID). The data custodian of a database. Use Organization ID to populate this field, and the organizations table to describe contact information and other details for the data custodian.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Circulating vaccine-derived poliovirus type 2

(cVDPV2). Circulating vaccine-derived poliovirus type 2
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: polioGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Number of cycles

(cyNum). The number of cycles of a PCR machine, or any other cycling process.
Part Type: measurements
Domain: phy
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: procGrp
Class: pcr
Nomenclature: pcr
Ontology Reference: NA
Category Set ID: NA
Unit Set: unitlessUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

D339H Mutation

(d339h). The FLiRT/SLip variant mutation D339H.
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: flirtSLipGrp
Class: mutation
Nomenclature: mutation
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

d377y delta-variant gene target

(d377y). d377y delta-variant gene target.
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: sarsCov2
Class: mutation
Nomenclature: mutation
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

d3g omicron-variant gene target

(d3g). d3g omicron-variant gene target.
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: sarsCov2
Class: mutation
Nomenclature: mutation
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

d63g delta-variant gene target

(d63g). d63g delta-variant gene target.
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: sarsCov2
Class: mutation
Nomenclature: mutation
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

d796y omicron-variant gene target

(d796y). d796y omicron-variant gene target.
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: sarsCov2
Class: mutation
Nomenclature: mutation
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

d950n delta-variant gene target

(d950n). d950n delta-variant gene target.
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: sarsCov2
Class: mutation
Nomenclature: mutation
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Daily count

(daiCo). The daily count of cases of a given disease. Aggregation for a population or disease measure to explain population-level clinical effects.
Part Type: aggregations
Domain: naDomain
Speciment ID: poSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Data collection sector or organization

(dataColl). Describes organization who collect compile, analyze, and or manage data as their central focus.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Dataset creation date

(datasetDate). Specifies the date a given dataset was created.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: datetime
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Dataset ID

(datasetID). The name of the dataset that stores information for MeasureReport, SampleReport and other reporting tables. Where possible, datasetID name should correspond the orignial data custodian responsible for generating environmental data. (suggestion for a default name convention.)
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Dataset table

(datasets). A report table for capturing details about data’s parental data set and data custodians. Supplying attribution for data collectors.
Part Type: tables
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: programDescr
Nomenclature: programDescr
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Datasets table column order

(datasetsOrder). Specifies the order of the columns in a Datasets table.
Part Type: tableSupport
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: integer
Missingness Set: NA
Minimum Value: 1
Maximum Value: NA
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Dataset table required headers

(datasetsRequired). Specifies the columns required in a Datasets table.
Part Type: tableSupport
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Data types

(dataTypes). The data type for a part. Data types used in the ODM include: varchar, booleen, float, category, date, time, datetime, url, email. dataType corresponds the the entry or cell within a data table, most commonly within a report table. If the data entry has a unit, then the dataType corresponds to the unit and the dataType refers to ‘unit’. If the data entry is a category, then the dataType refers to ‘category’. All categories are varchar. Otherwise the dataType is identifed within the part entry. TBA: dataType for dictionary.
Part Type: partType
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 12
Part Status: active. First released: active. Last updated: 2.0.0.

Date

(date). Date date on which the assayMethod was created or updated (for version update).
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: datetime
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: depreciated. First released: depreciated. Last updated: 2.0.0.

Datetime data type

(datetime). The data type for date and time data. Only used for the dictionary entries of parts.
Part Type: dataTypes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 15
Part Status: active. First released: active. Last updated: 2.0.0.

Days

(days). A unit for indicating a length of time in days.
Part Type: units
Domain: allDo
Speciment ID: anySpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: time
Nomenclature: time
Ontology Reference: NA
Category Set ID: NA
Unit Set: timeUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: integer
Missingness Set: NA
Minimum Value: 0
Maximum Value: NA
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

ddcov_e sars-cov-2 gene target

(ddcovE). ddcov_e sars-cov-2 gene target.
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: sarsCov2
Class: mutation
Nomenclature: mutation
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

ddcov_n sars-cov-2 gene target

(ddcovN). ddcov_n sars-cov-2 gene target.
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: sarsCov2
Class: mutation
Nomenclature: mutation
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Digital Droplet PCR (ddPCR)

(ddpcr). Describes a PCR analysis done using digital droplet PCR technology (general).
Part Type: categories
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: procGrp
Class: pcr
Nomenclature: pcr
Ontology Reference: NA
Category Set ID: NA
Unit Set: unitlessUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Deaths

(death). Units for describing a population measure of patients who have died from a given cause. Unit for a population or disease measure to explain population-level clinical effects.
Part Type: units
Domain: bio
Speciment ID: poSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: integer
Missingness Set: NA
Minimum Value: 0
Maximum Value: NA
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Omicron Variant 142-144 Deletion

(del142144). Omicron Variant 142-144 Deletion
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: omicronGrp
Class: mutation
Nomenclature: mutation
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

del143/145

(del143). 143 or 145 deletion omicron-variant gene target.
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: sarsCov2
Class: mutation
Nomenclature: mutation
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Delta Variant 156-157 Deletion

(del156157). Delta Variant 156-157 Deletion
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: deltaGrp
Class: mutation
Nomenclature: mutation
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

del 157/158

(del157). 157 or 158 deletion delta-variant gene target
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: sarsCov2
Class: mutation
Nomenclature: mutation
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

del2084/2084

(del2084). 2084 or 2084 deletion omicron-variant gene target.
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: sarsCov2
Class: mutation
Nomenclature: mutation
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

del212/212

(del212). 212 or 212 deletion omicron-variant gene target.
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: sarsCov2
Class: mutation
Nomenclature: mutation
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Omicron Variant 142-14431-33 Deletion

(del3133). Omicron Variant 142-14431-33 Deletion
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: omicronGrp
Class: mutation
Nomenclature: mutation
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

del3674/3676

(del3674). 3674 or 3676 deletion omicron-variant gene target.
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: sarsCov2
Class: mutation
Nomenclature: mutation
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

del69/70

(del6970). 69 or 70 deletion omicron-variant gene target.
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: sarsCov2
Class: mutation
Nomenclature: mutation
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Delayed Arrival or Prolonged Transit

(delayArriv). A substantial delay (ie. of more than 14 days) between sample collection and the start of analysis.
Part Type: qualityIndicators
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.3.

Delta

(delta). B.1.617.2
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: sarsCov2
Class: variant
Nomenclature: variant
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

SARS-CoV-2 Delta Variant Group

(deltaGrp). A group of measures/methods related to the SARS-CoV-2 Delta Variant.
Part Type: groups
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: deltaGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: http://purl.obolibrary.org/obo/NCIT_C169076
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Dengue Virus Type 1

(den1). Dengue virus, Type 1, general measurement
Part Type: measurements
Domain: bio
Speciment ID: poSaSpecimenSet
Compartment Set: anyCompartmentSet
Group: flavivirusGrp
Class: variant
Nomenclature: variant
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.3.

Dengue Virus Type 2

(den2). Dengue virus, Type 2, general measurement
Part Type: measurements
Domain: bio
Speciment ID: poSaSpecimenSet
Compartment Set: anyCompartmentSet
Group: flavivirusGrp
Class: variant
Nomenclature: variant
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.3.

Dengue Virus Type 3

(den3). Dengue virus, Type 3, general measurement
Part Type: measurements
Domain: bio
Speciment ID: poSaSpecimenSet
Compartment Set: anyCompartmentSet
Group: flavivirusGrp
Class: variant
Nomenclature: variant
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.3.

Dengue Virus Type 4

(den4). Dengue virus, Type 4, general measurement
Part Type: measurements
Domain: bio
Speciment ID: poSaSpecimenSet
Compartment Set: anyCompartmentSet
Group: flavivirusGrp
Class: variant
Nomenclature: variant
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.3.

denaturation

(denat). Describes the denaturation cycle in a PCR process.
Part Type: categories
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Dengue

(dengue). Dengue
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: flavivirusGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Depreciated

(depreciated). Indicator to say that a part is no longer in current use in the model. See partID = status
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Derived sample

(derived). A sample that is derived or made from another sample or material. A derived sample is a type of sample created by mixing material obtained from a field sample (e.g., wastewater, soil, or air) with additional additives in a laboratory setting. This process can involve diluting the original field sample with clean water or other solutions, as needed. Derived samples are typically used to adjust the concentration of the target substance or organism, making it more suitable for analysis or to test the efficiency and sensitivity of detection methods. In the example given, a derived sample might be a sub-sample of wastewater that is diluted with clean water to achieve a specific concentration, allowing for more accurate and reliable analysis.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Description

(descr). A detailed description of a measure, method, or attribute. A description of the part that serves a clear presentation of the part to a wide audience including techinical and not techincal staff. A description should allow any person who generates environment surveillance data to know how to identify how to record their data elements in the ODM. partReference can be used to further describe a part.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 200
Part Status: active. First released: active. Last updated: 2.0.0.

Description of change

(descrChange). A description of change in a part from the previous version.
Part Type: tableSupport
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Desk or counter

(desk). Desk, table, countertop or other flat working surface.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: surfaceCompartmentSet
Group: colGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Dewatered solids

(deso). Dewatered solids.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: waterCompartmentSet
Group: procGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Detected

(det). Substance detected or not detected. TRUE = detected, FALSE = not detected
Part Type: units
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: booleanSet
Unit Set: naUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: boolean
Missingness Set: NA
Minimum Value: 0
Maximum Value: 1
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Access to details deprecated

(detailsDep). More details on the existing confidentiality requirements of this measurement.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: booleanSet
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: boolean
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 1
Part Status: depreciated. First released: depreciated. Last updated: 2.0.0.

Development

(development). Indicator that a part is under development use. See partID = status
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Dictionary reference table set

(dictionaryRefTableSet). Reference or look-up tables. For example, the parts table describe all elements of the ODM, including tables, table headers, measures, methods, categories, and units. sets are collections of parts. For example, units can be grouped together in a unitSet. languages and translations support translations.
Part Type: dictSets
Domain: naDomain
Speciment ID: saSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Additional dictionary sheets

(dictionarySupport). Additional sheets for the Excel version of the ODM dictionary. Sheets or tabs for the ODM Excel dictionary include: all ERD tables (look-up tables and data entry tables) and additional supportig tables.
Part Type: partType
Domain: naDomain
Speciment ID: saSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 15
Part Status: active. First released: active. Last updated: 2.0.0.

Dictionary set type

(dictSets). Sets used to describe and group dictionary tables.
Part Type: partType
Domain: naDomain
Speciment ID: saSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Dilution factor

(dilFact). Specifies the extent to which a sample or aliquot was diluted prioir to analysis. Dilution factor is reported as a unitless measure, where a value of 10 indicates a 10:1 dilution.
Part Type: measurements
Domain: allDo
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: procGrp
Class: dilution
Nomenclature: dilution
Ontology Reference: NA
Category Set ID: NA
Unit Set: unitlessUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: integer
Missingness Set: genMissingnessSet
Minimum Value: 1
Maximum Value: NA
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Point dillutions

(dillute). Exact concentration or dillutions for generating a standard curve.
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: procGrp
Class: dilution
Nomenclature: dilution
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: float
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Dilution Class

(dilution). Measures and methods relating to dilutions.
Part Type: classes
Domain: phy
Speciment ID: siSaSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: dilution
Nomenclature: dilution
Ontology Reference: NA
Category Set ID: NA
Unit Set: unitlessUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Diphtheria Group

(diptheriaGrp). A group of measures/methods related to the diptheria bacteria. Used to describe the organism information for general measures.
Part Type: groups
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: diptheriaGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Diseases (human) class

(disease). Measure and methods related to disease or infection in humans.
Part Type: classes
Domain: bio
Speciment ID: poSpecimenSet
Compartment Set: humanCompartmentSet
Group: naGroup
Class: disease
Nomenclature: disease
Ontology Reference: NA
Category Set ID: NA
Unit Set: populationUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Dissolved gas concentration unit set

(dissGasUnitSet). Unit set for carbon dioxide concentrations measurements in water or air.
Part Type: unitSets
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: airWaterCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: dissGasUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

DNA Template

(dna). Deoxyribonucleic Acid (DNA) template is used for PCR or sequencing work.
Part Type: categories
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: procGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Dengue Virus E Gene

(dnvE). Dengue Type 2-specific gene taget.
Part Type: measurements
Domain: bio
Speciment ID: poSaSpecimenSet
Compartment Set: anyCompartmentSet
Group: flavivirusGrp
Class: allele
Nomenclature: allele
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.3.

Dengue Virus NS5 Gene

(dnvNS5). Dengue Type 1-specific gene target.
Part Type: measurements
Domain: bio
Speciment ID: poSaSpecimenSet
Compartment Set: anyCompartmentSet
Group: flavivirusGrp
Class: allele
Nomenclature: allele
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.3.

Dengue Virus prM Gene

(dnvprM). Dengue Type 3 and 4-specific gene target.
Part Type: measurements
Domain: bio
Speciment ID: poSaSpecimenSet
Compartment Set: anyCompartmentSet
Group: flavivirusGrp
Class: allele
Nomenclature: allele
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.3.

Depth of coverage

(doc). The sequencing read depth. Used to interpret the confidence in a presence or amount of a varient.
Part Type: units
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: integer
Missingness Set: NA
Minimum Value: 0
Maximum Value: 100
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Domain

(domain). Domain is the highest level of describing of a measure. The domain ID that corresponds to a given part. Mostly applicable for measures, methods, units, and aggregations.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Domains

(domains). There are three domain types: biologic (i.e. Covid-19, chemical (i.e. nitrogen), physical measure (temperature).
Part Type: partType
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Higher education domitory or residential building

(dorm). Higher education domitory or residential building
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: anyCompartmentSet
Group: colGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Digital PCR (dPCR)

(dpcr). Describes a PCR analysis done using digital PCR technology (general).
Part Type: categories
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: procGrp
Class: pcr
Nomenclature: pcr
Ontology Reference: NA
Category Set ID: NA
Unit Set: unitlessUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Sewer (drain)

(drain). A pipe that carries water or sewage away from a place, or an opening in a surface that leads to said pipe.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: waterCompartmentSet
Group: colGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.3.

Dataset table Shorthand

(ds). The abbreviated short name used to reference the A report table for capturing details about data’s parental data set and data custodians. Supplying attribution for data collectors. table
Part Type: shortName
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.2.

Duration time of a method

(duration). The duration of time for a given method as described in protocols.
Part Type: measurements
Domain: naDomain
Speciment ID: anySpecimenSet
Compartment Set: anyCompartmentSet
Group: procGrp
Class: time
Nomenclature: time
Ontology Reference: NA
Category Set ID: NA
Unit Set: timeUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

e156g delta-variant gene target

(e156g). e156g delta-variant gene target
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: sarsCov2
Class: mutation
Nomenclature: mutation
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

e484a omicron-variant gene target

(e484a). e484a omicron-variant gene target
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: sarsCov2
Class: mutation
Nomenclature: mutation
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Enteroaggregative Escherichia coli (EAEC)

(eaec). Enteroaggregative Escherichia coli (EAEC)
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: ecoliGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Epstein‚Äö√Ñ√¨Barr virus (EBV)

(ebv). Epstein‚Äö√Ñ√¨Barr virus (EBV), formerly known as Human gammaherpesvirus 4
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: herpesGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Educational Community License v2.0

(ecl20). The licensing for the measure or data set is managed under the Educational Community License v2.0.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: https://choosealicense.com/licenses/ecl-2.0/
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Escherichia coli

(ecoli). Concentration of bacteria that are passed through the faecal excrement of humans, livestock and wildlife
Part Type: measurements
Domain: bio
Speciment ID: siSaSpecimenSet
Compartment Set: surfaceWaterCompartmentSet
Group: ecoliGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: bacteriaUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Escherichia coli group

(ecoliGrp). A group of measures/methods related to Escherichia coli bacteria. Used to describe the organism information for general measures.
Part Type: groups
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: ecoliGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Education

(education). A measure or sample taken for education or training. Use this purpose, for example, when teaching how to use the PHES-ODM.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Efficiency

(efficient). The efficiency reported for a standard curve.
Part Type: units
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: standardCurve
Nomenclature: standardCurve
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: float
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Wastewater Effluent - non-specified

(effluNS). Sample material is wastewater effluent - whether primary, secondary or other is unspecified.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: waterCompartmentSet
Group: colGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.3.

Enterohemorrhagic Escherichia coli (EHEC)

(ehec). Enterohemorrhagic Escherichia coli (EHEC)
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: ecoliGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Enteroinvasive Escherichia coli (EIEC)

(eiec). Enteroinvasive Escherichia coli (EIEC)
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: ecoliGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Eluate/Resuspended filter material retained

(eluate). The eluate fraction, or material resuspended from filtration, is retained after solid separation/centrifugation.
Part Type: categories
Domain: phy
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: procGrp
Class: standardConc
Nomenclature: standardConc
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Elution buffer

(elutionBuff). Elution buffer is used to resuspend material.
Part Type: categories
Domain: phy
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: procGrp
Class: standardConc
Nomenclature: standardConc
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Contact email

(email). Contact e-mail address, for the lab.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 100
Part Status: active. First released: active. Last updated: 2.0.0.

European Nucleotide Association

(enaMap). ENA header
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

European Nucleotide Association (ENA) - notes

(enaNotes). ENA notes
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Enterovirus

(enterovirus). Enterovirus
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: enterovirusGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Enterovirus Group

(enterovirusGrp). A group of measures/methods related to enteroviruses. Used to describe the organism information for general measures.
Part Type: groups
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: enterovirusGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Enumeration for set values

(enumeration). The numeric value that corresponds to a given value in a set, defined in the sets table.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: integer
Missingness Set: genMissingnessSet
Minimum Value: 0
Maximum Value: 100
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Rainfall

(envRnF). Rainfall, i.e. amount of precipitation in the form of rain.
Part Type: measurements
Domain: phy
Speciment ID: siSpecimenSet
Compartment Set: anyCompartmentSet
Group: siteFeat
Class: precipitation
Nomenclature: precipitation
Ontology Reference: NA
Category Set ID: NA
Unit Set: precipitationUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: float
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Ground snow depth

(envSnwD). Total depth of snow on the ground.
Part Type: measurements
Domain: phy
Speciment ID: siSpecimenSet
Compartment Set: anyCompartmentSet
Group: siteFeat
Class: precipitation
Nomenclature: precipitation
Ontology Reference: NA
Category Set ID: NA
Unit Set: precipitationUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: float
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Snowfall

(envSnwF). Snowfall, i.e. amount of precipitation in the form of snow.
Part Type: measurements
Domain: phy
Speciment ID: siSpecimenSet
Compartment Set: anyCompartmentSet
Group: siteFeat
Class: precipitation
Nomenclature: precipitation
Ontology Reference: NA
Category Set ID: NA
Unit Set: precipitationUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: float
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Enteropathogenic Escherichia coli (EPEC)

(epec). Enteropathogenic Escherichia coli (EPEC)
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: ecoliGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Episode date

(epiDate). Episode date is the earliest of onset, test or reported date.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: NA
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: depreciated. First released: depreciated. Last updated: 2.0.0.

Eclipse Public License 1.0

(epl10). The licensing for the measure or data set is managed under the Eclipse Public License 1.0.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: https://choosealicense.com/licenses/epl-1.0/
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Eclipse Public License 2.0

(epl20). The licensing for the measure or data set is managed under the Eclipse Public License 2.0.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: https://choosealicense.com/licenses/epl-2.0/
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

ERD table set

(erdTableSet). All tables listed in the Entity Relationship Diagram. The full ODM model is commonly referred to as “long” tables as it stores data with one measurement per row.
Part Type: dictSets
Domain: naDomain
Speciment ID: saSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Sarbecovirus-specific E sars-cov-2 gene target

(eSarbec). Sarbecovirus-specific E sars-cov-2 gene target
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: sarsCov2
Class: mutation
Nomenclature: mutation
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

ESBL-encoding genes

(esbl). Extended-spectrum beta-lactamase-encoding genes.
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: amrGrp
Class: pcr
Nomenclature: pcr
Ontology Reference: NA
Category Set ID: NA
Unit Set: bacteriaUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.1.0.

exclusions based sample preparation (ESP)

(esp). exclusions based sample preparation (ESP)
Part Type: categories
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: procGrp
Class: mutation
Nomenclature: mutation
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Estimated frequency of reads

(estFreqReads). Estimated frequency of reads in a sequencing assay
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: procGrp
Class: sequence
Nomenclature: sequence
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Estuary, natural water body

(estuary). Estuary, natural water body
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: waterCompartmentSet
Group: colGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Enterotoxigenic Escherichia coli (ETEC)

(etec). Enterotoxigenic Escherichia coli (ETEC)
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: ecoliGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

European Union Public License 1.1

(eupl11). The licensing for the measure or data set is managed under the European Union Public License 1.1.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: https://choosealicense.com/licenses/eupl-1.1/
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

European Union Public License 1.2

(eupl12). The licensing for the measure or data set is managed under the European Union Public License 1.2.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: https://choosealicense.com/licenses/eupl-1.2/
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Exception Part Type

(exceptions). An exception part type for use in creating wide names that do not follow the general structure.
Part Type: partType
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 15
Part Status: active. First released: active. Last updated: 2.0.0.

Extraintestinal pathogenic Escherichia coli (ExPEC)

(expec). Extraintestinal pathogenic Escherichia coli (ExPEC)
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: ecoliGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Experiment Failed

(expFail). PCR experiment failed. No value reported. Value should be blank for a measure with this qualityFlag value.
Part Type: qualityIndicators
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Extraction Blank - Control

(extBlank). Binary Y/N indicator for if extraction blank was used as a control for the nucleic acid extraction process.
Part Type: methods
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: procGrp
Class: standardConc
Nomenclature: standardConc
Ontology Reference: NA
Category Set ID: booleanSet
Unit Set: unitlessUnitSet
Aggregation Scale: qualAggScale
Quality Set: NA
Reference Link: NA
Data Type: boolean
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

4s method

(extract4s). Nucleic acid extraction performed using the 4s method.
Part Type: categories
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: procGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: https://www.protocols.io/view/v-4-direct-wastewater-rna-capture-and-purification-bpdfmi3n
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Nucleic acid extraction method

(extraction). Description of the nucleic acid extraction method. Description of the method used to extract the sample
Part Type: methods
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: procGrp
Class: pcr
Nomenclature: pcr
Ontology Reference: NA
Category Set ID: extractSet
Unit Set: unitlessUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 100
Part Status: active. First released: active. Last updated: 2.0.0.

Nucleic Acid Extraction set

(extractSet). set used for storing all the valid category values for the nucleic acid extraction method.
Part Type: mmaSets
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: extractSet
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Extraction volume of sample

(exvol). Extraction volume of sample. Size of the sample that is analyzed.
Part Type: measurements
Domain: phy
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: procGrp
Class: physical
Nomenclature: physical
Ontology Reference: NA
Category Set ID: NA
Unit Set: volumeUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: float
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

F456L Mutation

(f456l). The FLiRT/SLip variant mutation F456L.
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: flirtSLipGrp
Class: mutation
Nomenclature: mutation
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Fecal matter

(faeces). Fecal matter.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: waterCompartmentSet
Group: colGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

FALSE

(FALSE). Boolean data type = FALSE Use these values and their set for any boolean measure or attribute. Use only “FALSE” (case sensitive)
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: boolean
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 5
Maximum Length: 5
Part Status: active. First released: active. Last updated: 2.0.0.

Male-specific (F+) coliphage - general

(fColiphage). Male-specific (F+) coliphage - general
Part Type: measurements
Domain: bio
Speciment ID: poSaSpecimenSet
Compartment Set: anyCompartmentSet
Group: phageGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.3.

F+ DNA coliphage

(fDNA). F+ DNA coliphage
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: phageGrp
Class: allele
Nomenclature: allele
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Field sample

(field). Specifies a sample taken from the field; directly collected from an area for testing.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Field sample replicate

(fieldReplicate). A sample divided into two or more homogeneous parts.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

File location of polygon

(fileLocation). The location of the file containing the geometry of the polygon. File path specified, or a URL
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: blob
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 65535
Part Status: active. First released: active. Last updated: 2.0.0.

Filtration

(filt). Describes solid separation from a wastewater sample via filtration. Proceeds further concentration or analysis of the liquid filtrate.
Part Type: categories
Domain: allDo
Speciment ID: saSpecimenSet
Compartment Set: waterCompartmentSet
Group: procGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

First Nation

(fiNa). Used to categorize a sampleshed that is a First Nation, or on reserve lands. Likely for internal use only, Indigenous data can and should not be shared without explicit consent of the nation in quesiton.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: colGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 10
Part Status: active. First released: active. Last updated: 2.0.0.

Final volume

(finVol). The final volume of a testing solution or sample.
Part Type: measurements
Domain: che
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: procGrp
Class: standardConc
Nomenclature: standardConc
Ontology Reference: NA
Category Set ID: NA
Unit Set: stdConcentrationUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

First name of contact

(firstName). Specifies the first name of a given contact.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

First released version

(firstReleased). The version in which a part was first released
Part Type: partSupport
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Foreign key

(fK). Foreign key for a table.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

AI - Inhibition present but addressed

(flagAI). The original sample was inhibited; however, the inhibition has been addressed through dilution. The reported concentration estimate is the updated result after addressing inhibition.
Part Type: qualityIndicators
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

B - Trace levels of contamination

(flagB). Analytical result may be subject to ‚Äö√Ñ√∫trace‚Äö√Ñ√π levels of contamination; the target analyte was also detected in negative controls on the same run as the sample.
Part Type: qualityIndicators
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

FI - Inhibition present and unaddressed

(flagFI). The original sample was inhibited; however, the inhibition has not been successfully addressed. Therefore, no concentration estimate has been reported.
Part Type: qualityIndicators
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

J - Weak signal extrapolation

(flagJ). Analytical result falls below the lowest concentration of the experiment-specific standard curve but above the y-intercept value; the reported value is based on the extrapolation of the standard curve in the non-linear region.
Part Type: qualityIndicators
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

ND - Non-detect

(flagND). No amplification occurred in the reaction; non-detect. For the value of a non-detected measure, report the actual value even if it is below the limit of detection. The flag here ensures that it’s recorded as a non-detect regardless. In instances where the original data doesn’t record a value, but only has the flag, please populate the value field with either a 0 if dealing with variant percentages, and a 1 for all other purposes to further indicate a null result.
Part Type: qualityIndicators
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

UJ - Trace signal extrapolation

(flagUJ). Observed quantitation cycle is greater than the experiment-specific standard curve intercept value but evidence of clear amplification was present (i.e., ‚Äö√Ñ√∫trace‚Äö√Ñ√π signal observed); the reported value is based on the extrapolation of the standard curve in the non-linear region.
Part Type: qualityIndicators
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

UQ - Unquantifiable

(flagUQ). Unquantifiable, Ct value exceeds the maximum value of the standard curve. There was a detect, but we cannot quantify it with certainty.
Part Type: qualityIndicators
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Flavivirus (West Nile, Dengue, Zika) Group

(flavivirusGrp). A group of measures/methods related to flaviviruses. Used to describe the organism information for general measures.
Part Type: groups
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: flavivirusGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

FLiRT/SLip Variant Group

(flirtSLipGrp). The group for measures and methods pertaining to the FLiRT and SLip variants of SARS-CoV-2.
Part Type: groups
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: sarsCov2
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

FLiRT Variants

(flirtV). FLiRT is the name given to an entire family of COVID-19 subvariants that are gaining dominance. They’ve evolved from the JN.1 subvariant.
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: sarsCov2
Class: variant
Nomenclature: variant
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Float data type

(float). The data type for float data. Only used for the dictionary entries of parts.
Part Type: dataTypes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 15
Part Status: active. First released: active. Last updated: 2.0.0.

Flow-normalized mean

(floMean). Mean measure normalized to wastewater flow. Mostly used for reporting specific alleles (N1, N2, E, etc.)
Part Type: aggregations
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Floor

(floor). Floor of a building or room.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: surfaceCompartmentSet
Group: colGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Flow rate

(floRate). Wastewater volumetric flow rate at the sample collection location over the 24-hr period during which the sample was collected. If only an instantaneous flow measurement is available, it may be reported in units of million gallons per day.
Part Type: measurements
Domain: phy
Speciment ID: siSpecimenSet
Compartment Set: waterCompartmentSet
Group: siteFeat
Class: flow
Nomenclature: flow
Ontology Reference: NA
Category Set ID: NA
Unit Set: flowUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Flow class

(flow). Measures and methods related to flow.
Part Type: classes
Domain: phy
Speciment ID: siSpecimenSet
Compartment Set: waterCompartmentSet
Group: naGroup
Class: flow
Nomenclature: flow
Ontology Reference: NA
Category Set ID: NA
Unit Set: flowUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Flow proportional 24hr sample depreciated

(flow24hDep). A flow proportional 24-hour composite sample generally collected by an autosampler.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: waterCompartmentSet
Group: colGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: NA
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: depreciated. First released: depreciated. Last updated: 2.0.0.

Flow proportional sample

(flowPr). A flow proportional composite sample generally collected by an autosampler. Use collectionPeriod to describe how many hours the sample was taken. The volume of wastewater taken is proportional to the flow rate flowing at each instant of sampling. This is also called constant time, variable volume (CTVV).
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: waterCompartmentSet
Group: colGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Volume flow rate unit set

(flowUnitSet). Unit set for volume flow measurements.
Part Type: unitSets
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: waterCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: flowUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Flow volume

(flowVol). Volume of influent.
Part Type: measurements
Domain: phy
Speciment ID: siSpecimenSet
Compartment Set: waterCompartmentSet
Group: siteFeat
Class: flow
Nomenclature: flow
Ontology Reference: NA
Category Set ID: NA
Unit Set: flowUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: float
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Influenza virus measure

(flu). General influenza virus measure This measure should only be used if there is no other influenza virus measure. See groupID = virusMisc. Use a note to describe the specific measure used.
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: fluGrp
Class: organism
Nomenclature: organism
Ontology Reference: http://purl.obolibrary.org/obo/MONDO_0005812
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Influenza A virus

(fluA). Influenza A virus.
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: fluAGrp
Class: allele
Nomenclature: allele
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.1.0.

Influenza virus A1

(fluA1). Influenza virus A1 type
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: fluAGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Influenza virus A1 and A2 combined

(fluA1A2c). Measure of influenza virus A1 and A2 combined, usually due to single fluorescence channel.
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: fluAGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

influenza virus A2

(fluA2). influenza virus A2 type
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: fluAGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Influenza A Virus Group

(fluAGrp). A group of measures/methods related to Influenza A viruses. Used to describe the organism information for general measures.
Part Type: groups
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: fluAGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Influenza virus B

(fluB). Influenza virus B type
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: fluBGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Influenza B Virus Group

(fluBGrp). A group of measures/methods related to Influenza B viruses. Used to describe the organism information for general measures.
Part Type: groups
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: fluBGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Influenza Virus General Group

(fluGrp). A group of measures/methods related to general influenza viruses. Used to describe the organism information for general measures.
Part Type: groups
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: fluGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Influenza A H5 hemagglutinin gene

(fluH5hema). Measure of the H5 hemagglutinin gene from the Highly Pathogenic Avian Influenza Virus (HPAIV), the H5N1 Influenza A Virus (IAV) subtype.
Part Type: measurements
Domain: bio
Speciment ID: poSaSpecimenSet
Compartment Set: anyCompartmentSet
Group: fluAGrp
Class: allele
Nomenclature: allele
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.3.

Influenza A M gene

(fluIAVm). A measure of the M gene found in Influenza A viruses (IAV). The virus has segmented RNA genome and 7th segment, M gene, encodes 2 proteins. M1 is a matrix protein and M2 is a membrane protein. The M gene may be involved in determining host tropism.
Part Type: measurements
Domain: bio
Speciment ID: poSaSpecimenSet
Compartment Set: anyCompartmentSet
Group: fluAGrp
Class: allele
Nomenclature: allele
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.3.

Fluidigm digital PCR

(fluiDpcr). Describes a PCR analysis done using FluidIGM’s digital PCR technology.
Part Type: categories
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Influenza A N1 neuraminidase gene

(fluN1neur). Measure of the N1 neuraminidase gene from the Highly Pathogenic Avian Influenza Virus (HPAIV), the H5N1 Influenza A Virus (IAV) subtype.
Part Type: measurements
Domain: bio
Speciment ID: poSaSpecimenSet
Compartment Set: anyCompartmentSet
Group: fluAGrp
Class: allele
Nomenclature: allele
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.3.

Foggy

(foggy). Qualitative category for the weather measure, specifying a foggy or hazy day.
Part Type: categories
Domain: phy
Speciment ID: siSpecimenSet
Compartment Set: anyCompartmentSet
Group: siteFeat
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Fraction analyzed

(fraction). Fraction of the sample that is analyzed.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: fractionSet
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Fraction input (wide table)

(fractionInput). The partID for the fraction being used in a wide name.
Part Type: attributes
Domain: naDomain
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Fraction name (wide table)

(fractionName). The fraction analyzed referenced for the wide name.
Part Type: attributes
Domain: naDomain
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Sample fraction set

(fractionSet). set for the fraction of the sample (solid, liquid, etc.).
Part Type: mmaSets
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: fractionSet
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Freyja Script

(freyja). Freyja Script for sequencing.
Part Type: categories
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: https://github.com/andersen-lab/Freyja
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

F-Specific RNA bacteriophages

(fRNABact). A measure for amount of F-Specific RNA bacteriophages.
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: phageGrp
Class: allele
Nomenclature: allele
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

F+ RNA coliphage

(fRNAColi). F+ RNA coliphage
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: phageGrp
Class: allele
Nomenclature: allele
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

F-Specific RNA bacteriophages, G2

(frnaG2). A measure for amount of G2 F-Specific RNA bacteriophages.
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: phageGrp
Class: allele
Nomenclature: allele
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Sample frozen

(frozen). Sample was frozen before analysis or processing
Part Type: qualityIndicators
Domain: naDomain
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Field sample temperature

(fst). Temperature that the sample is stored at while it is being sampled. This field is mainly relevant for composite samples which are either kept at ambient temperature or refrigerated while being sampled.
Part Type: measurements
Domain: phy
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: procGrp
Class: temperature
Nomenclature: temperature
Ontology Reference: NA
Category Set ID: NA
Unit Set: temperatureUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: float
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Francisella tularensis

(fTularensis). Francisella tularensis
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: tularemiaGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Full dictionary sheets set

(fullDictionarySheetSet). Worksheets in the full Excel dictionary. The full dictionary is `ODM_full-dictionary.xlxs
Part Type: dictSets
Domain: naDomain
Speciment ID: saSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Funder contact ID

(funderCont). A unique identifier for a funder.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Funding agency ID

(funderID). The funding agency of the dataset. Use Organization ID to populate this field, and the organizations table to describe contact information and other details for the funding agency.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

g215c delta-variant gene target

(g215c). g215c delta-variant gene target
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: sarsCov2
Class: mutation
Nomenclature: mutation
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

g339d omicron-variant gene target

(g339d). g339d omicron-variant gene target
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: sarsCov2
Class: mutation
Nomenclature: mutation
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

g496s omicron-variant gene target

(g496s). g496s omicron-variant gene target
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: sarsCov2
Class: mutation
Nomenclature: mutation
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

g662s delta-variant gene target

(g662s). g662s delta-variant gene target
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: sarsCov2
Class: mutation
Nomenclature: mutation
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Gamma

(gam). P.1
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: sarsCov2
Class: variant
Nomenclature: variant
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Gas class

(gas). Measures and methods relating to gas and gases.
Part Type: classes
Domain: che
Speciment ID: siSaSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: gas
Nomenclature: gas
Ontology Reference: NA
Category Set ID: NA
Unit Set: dissGasUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Gene copies

(gc). Gene or variant copies
Part Type: units
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: integer
Missingness Set: NA
Minimum Value: 0
Maximum Value: NA
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Gene copies per copy of crAssphage

(gcCrA). Gene or variant copies per copy of crAssphage.
Part Type: units
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: integer
Missingness Set: NA
Minimum Value: 0
Maximum Value: NA
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

gene copies per day per 100,000 people

(gcD100). The unit for measures reflecting the gene copies per day per 100,000 people in the population.
Part Type: units
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: float
Missingness Set: NA
Minimum Value: 0
Maximum Value: NA
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Gene copies per gram solids

(gCGS). Gene or variant copies per gram solids.
Part Type: units
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: waterCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: integer
Missingness Set: NA
Minimum Value: 0
Maximum Value: NA
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Gene copies per L

(gcL). Gene or variant copies per litre.
Part Type: units
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: integer
Missingness Set: NA
Minimum Value: 0
Maximum Value: NA
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Gene copies per mL

(gcMl). Gene or variant copies per millilitre of solution.
Part Type: units
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: integer
Missingness Set: NA
Minimum Value: 0
Maximum Value: NA
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Gene copies per PMMoV copy

(gcPpmov). Gene or variant copies per copy of PMMoV.
Part Type: units
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: waterCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: integer
Missingness Set: NA
Minimum Value: 0
Maximum Value: NA
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Genetics unit set

(geneticUnitSet). Unit set for genetic-related measurements.
Part Type: unitSets
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

General missingness set

(genMissingnessSet). The general set for missingness values.
Part Type: missingnessSets
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Generic quality flag set

(genQualitySet). A quality set to specify any generic quality concerns about a measure or sample.
Part Type: qualityIndSets
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

European Petroleum Survey Group Coordinates

(geoEPSG). The unique EPSG code specifying a given geospatial area.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: miscAttr
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: float
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Latitude

(geoLat). Geographical location, latitude in decimal coordinates, ie.: (45.424721)
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: miscAttr
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: float
Missingness Set: genMissingnessSet
Minimum Value: -90
Maximum Value: 90
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Longitude

(geoLong). Geographical location, longitude in decimal coordinates, ie.: (-75.695000)
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: miscAttr
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: float
Missingness Set: genMissingnessSet
Minimum Value: -180
Maximum Value: 180
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Type of geography

(geoType). Type of geography that is represented by the polygon.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: geoTypeSet
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Geographic set

(geoTypeSet). set for different type of geographic components.
Part Type: mmaSets
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: geoTypeSet
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Well-known text

(geoWKT). Well-known text of the polygon
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 63
Part Status: active. First released: active. Last updated: 2.0.0.

GNU Free Documentation License v1.3

(gfdl13). The licensing for the measure or data set is managed under the GNU Free Documentation License v1.3.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: https://choosealicense.com/licenses/gfdl-1.3/
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Gram per cubic metre

(gm3). Density unit. Used for absolute humidity and other measures.
Part Type: units
Domain: allDo
Speciment ID: anySpecimenSet
Compartment Set: airCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: float
Missingness Set: NA
Minimum Value: 0
Maximum Value: NA
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Geometric mean

(gmn). Geometric mean.
Part Type: aggregations
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Gonococcus Group

(gonococcusGrp). A group of measures/methods related to gonococcus bacteria. Used to describe the organism information for general measures.
Part Type: groups
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: gonococcusGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Government agency

(govt). The category of organization type used for government agencies, programs, or crown-owned bodies.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 10
Part Status: active. First released: active. Last updated: 2.0.0.

GNU General Public License v2.0

(gpl20). The licensing for the measure or data set is managed under the GNU General Public License v2.0.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: https://choosealicense.com/licenses/gpl-2.0/
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

GNU General Public License v3.0

(gpl30). The licensing for the measure or data set is managed under the GNU General Public License v3.0.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: https://choosealicense.com/licenses/gpl-3.0/
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Grams

(grams). A unit of mass or weight.
Part Type: units
Domain: phy
Speciment ID: siSaSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: float
Missingness Set: NA
Minimum Value: 0
Maximum Value: NA
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Gravity settling

(graSet). Describes solid separation from a wastewater sample where the sample material is allowed to settle by gravity, and then separated.
Part Type: categories
Domain: allDo
Speciment ID: saSpecimenSet
Compartment Set: waterCompartmentSet
Group: procGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Grab sample

(grb). A single large representative grab sample. If the sample was collected over a series of hours or is a composite sammple, please use partID = comp
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: waterCompartmentSet
Group: colGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Gromstole 1.0 Script

(gromstole). Gromstole 1.0 Script for sequencing.
Part Type: categories
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: https://github.com/PoonLab/gromstole
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Group

(group). Unique identifier for a group of measures. Mostly applicable for measures, methods, units, and aggregations. A collection of related measures. For example, SARS-CoV-2 is a group. Within the SARS-CoV-2 group, there are measure classes tht include RNA alleles (N1, N2, E, etc.), mutations, (E484K0), an entire sequence, viral proteins, etc. Currently groups are used for measures only.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Groups

(groups). A collection of related measures. Used primary to group measurements and methods, this helps pare down the drop down list for a given measurement or
Part Type: partType
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Influenza A H5 hemagglutinin gene

(h5hema). Measure of the H5 hemagglutinin gene from the Highly Pathogenic Avian Influenza Virus (HPAIV), the H5N1 Influenza A Virus (IAV) subtype.
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: fluAGrp
Class: allele
Nomenclature: allele
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

H5N1 avian influenza A virus (IAV)

(h5n1). General measurement for the Highly Pathogenic Avian Influenza Virus (HPAIV), the H5N1 Influenza A Virus (IAV) subtype.
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: fluAGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Haemophilus Group

(haemophilusGrp). A group of measures/methods related to haemophilus bacteria. Used to describe the organism information for general measures.
Part Type: groups
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: haemophilusGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

See Header for Aggregation

(hAg). An indicator to show in a wide-name that aggregation information is located in a different column. Not a valid value for aggregation in the standard long-format.
Part Type: aggregations
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

See Header for Compartment

(hCo). A indicator for wide-names that the compartment information is stored in a separate column. Not a valid value for compartment in the standard long-format.
Part Type: compartments
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: wideCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 15
Part Status: active. First released: active. Last updated: 2.2.0.

Haemophilus ducreyi

(hDucreyi). Haemophilus ducreyi
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: haemophilusGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Header

(header). Header for a table. Also known as a table variable or entiy relationship ‘attribute’. Header is the top row or the variable name in a table.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Health administration or planning agency

(healthAdm). Health adminstrative or planning organization.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Heat inactivated sars-cov-2 virus spike target

(heatInacSARS). Heat inactivated SARS-CoV-2 virus is used as the recovery efficiency control target.
Part Type: categories
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: procGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Hepatitis A

(hepA). Hepatitis A
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: hepGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Hepatitis B

(hepB). Hepatitis B
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: hepGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Hepatitis C

(hepC). Hepatitis C
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: hepGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Hepatitis E

(hepE). Hepatitis E
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: hepGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

hep g armored rna

(hepGRna). Measure of the amount Hepatitis G Armored RNA.
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: hepGrp
Class: allele
Nomenclature: allele
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

hep g armored rna spike target

(hepGRnaMat). Hepatitis G armored RNA is used as the recovery efficiency control target.
Part Type: categories
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: procGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Hepatitis Group

(hepGrp). A group of measures/methods related to hepatitis viruses. Used to describe the organism information for general measures.
Part Type: groups
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: hepGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Herpes Virus Group

(herpesGrp). A group of measures/methods related to herpes viruses. Used to describe the organism information for general measures.
Part Type: groups
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: herpesGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

HF183 Bacteriodes 16S

(hf183). Human-Specific HF183 Bacteriodes 16S rRNA
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: bacteroidesGrp
Class: allele
Nomenclature: allele
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

See Header for Fraction Analyzed

(hFr). An indicator in wide-names to show that information on the fraction analyzed in found under a separate header. Not a valid value for fraction analyzed in the standard long-format.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: waterCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

5-hydroxyindoleacetic acid (5-HIAA)

(hiaa5). A serotonin metaboliteused for normalizing wastewater surveillance signal. Analysis of 5-HIAA is done in clinical settings to assess the possibility of carcinoid syndorme in patients, and used in wastewater analysis to estimate human population numbers. Studies have shown that 5-HIAA can be quanitified in samples from WWTPs, and that measured quantities of this molecule have a positive correlation with the population calculated using hydrochemical parameters, and are also correlated well with the census population measures.
Part Type: measurements
Domain: che
Speciment ID: siSaSpecimenSet
Compartment Set: waterCompartmentSet
Group: procGrp
Class: standardConc
Nomenclature: standardConc
Ontology Reference: NA
Category Set ID: NA
Unit Set: stdConcentrationUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

High severity

(high). Indicates a very sever quality issue, likely meaning the data should not be reported.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Haemophilus influenzae

(hInfluenzae). Haemophilus influenzae
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: haemophilusGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Human Immunodeficiency Virus (HIV)

(hiv). Human Immunodeficiency Virus (HIV)
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: hivGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

HIV Group

(hivGrp). A group of measures/methods related to Human Immunodeficiency Virus (HIV). Used to describe the organism information for general measures.
Part Type: groups
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: hivGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Hand Measurement

(hma). Handheld measurement analyzer. A handheld measurement analyzer.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

See Header for Measure

(hMe). An indicator to show in a wide-name that measure information is located in a different column. Not a valid value for measure in the standard long-format.
Part Type: measurements
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Human Metapneumovirus (HMPV)

(hmpv). Human Metapneumovirus (HMPV)
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: mpvGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Hollow fiber dead end ultrafiltration

(hollowFiberUF). Hollow fiber dead end ultrafiltration
Part Type: categories
Domain: che
Speciment ID: naSpecimenSet
Compartment Set: waterCompartmentSet
Group: procGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Horizontal grab sampling

(horGrb). Intrument type is a grab sampler in which the container for the sample is mounted on the end of a rod, which is suitable for collecting discharge from a pipe or truck.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: waterCompartmentSet
Group: colGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.3.

General Hospital Admissions

(hosa). Hospital admissions or patients newly admitted to hospital.
Part Type: units
Domain: bio
Speciment ID: poSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: integer
Missingness Set: NA
Minimum Value: 0
Maximum Value: NA
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Hospital Census

(hosc). Hospital census or the number of people admitted with an ailment.
Part Type: units
Domain: bio
Speciment ID: poSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: integer
Missingness Set: NA
Minimum Value: 0
Maximum Value: NA
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Hospital

(hosptl). Hospital
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: anyCompartmentSet
Group: colGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Holding tank wastewater depreciated

(hoTaWa). Wastewater from a holding tank, such as from an airplane or ship Deprecated in version 2, please do not use. Duplicate of the sampleMat categories - refer to those.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: waterCompartmentSet
Group: colGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: NA
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: depreciated. First released: depreciated. Last updated: 2.0.0.

Hours

(hours). A unit for indicating a length of time in hours.
Part Type: units
Domain: allDo
Speciment ID: anySpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: time
Nomenclature: time
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: integer
Missingness Set: NA
Minimum Value: 0
Maximum Value: NA
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Human Parainfluenza Virus (HPIV)

(hpiv). Human Parainfluenza Virus (HPIV)
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: parafluGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Human Papiloma Virus (HPV)

(hpv). Human Papiloma Virus (HPV)
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: papilomavirusGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Human Rhinovirus (HRV)

(hrv). Human Rhinovirus (HRV)
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: hrvGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Human Rhinovirus (HRV) A

(hrvA). Human Rhinovirus (HRV) A
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: hrvGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Human Rhinovirus (HRV) B

(hrvB). Human Rhinovirus (HRV) B
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: hrvGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Human Rhinovirus (HRV) C

(hrvC). Human Rhinovirus (HRV) C
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: hrvGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Rhinovirus Group

(hrvGrp). A group of measures/methods related to rhinoviruses. Used to describe the organism information for general measures.
Part Type: groups
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: hrvGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

See Header for Specimen

(hSp). An indicator to show in a wide-name that specimen information is located in a different column. Not a valid value for specimen in the standard long-format.
Part Type: specimens
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Herpes Simplex Virus

(hsv). Herpes Simplex Virus
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: herpesGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Holding tank wastewater

(htSam). Wastewater sampled from a holding tank, such as from an airplane or ship
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: waterCompartmentSet
Group: colGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Holding tank

(htSite). Holding tank
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: waterCompartmentSet
Group: colGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Human compartment

(hum). A measure or observation made about a human.
Part Type: compartments
Domain: bio
Speciment ID: anySpecimenSet
Compartment Set: humanCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 15
Part Status: active. First released: active. Last updated: 2.0.0.

Human compartment set

(humanCompartmentSet). A compartment set for measures and methods in the human compartment.
Part Type: compartmentSets
Domain: bio
Speciment ID: anySpecimenSet
Compartment Set: humanCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 15
Part Status: active. First released: active. Last updated: 2.0.0.

Humidity class

(humid). Measures and methods related to humidity.
Part Type: classes
Domain: phy
Speciment ID: siSpecimenSet
Compartment Set: airCompartmentSet
Group: naGroup
Class: humid
Nomenclature: humid
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

See Header for Unit

(hUn). An indicator to show in a wide-name that unit information is located in a different column. Not a valid value for unit in the standard long-format.
Part Type: units
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

i1566v omicron-variant gene target

(i1566v). i1566v omicron-variant gene target
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: sarsCov2
Class: mutation
Nomenclature: mutation
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

i3758v omicron-variant gene target

(i3758v). i3758v omicron-variant gene target
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: sarsCov2
Class: mutation
Nomenclature: mutation
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

i82t delta-variant gene target

(i82t). i82t delta-variant gene target
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: sarsCov2
Class: mutation
Nomenclature: mutation
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Influenza A M gene

(iavM). A measure of the M gene found in Influenza A viruses (IAV). The virus has segmented RNA genome and 7th segment, M gene, encodes 2 proteins. M1 is a matrix protein and M2 is a membrane protein. The M gene may be involved in determining host tropism.
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: fluAGrp
Class: allele
Nomenclature: allele
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: https://virologyj.biomedcentral.com/articles/10.1186/1743-422X-6-67#:~:text=The%20M%20gene%20of%20all%20known%20human%20influenza%20A%20viruses,of%20the%201918%20Spanish%20Flu.
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Ibuprofen

(ibu). Ibuprofen (usually measured as a human fecal chemical indicator)
Part Type: measurements
Domain: che
Speciment ID: siSaSpecimenSet
Compartment Set: waterCompartmentSet
Group: procGrp
Class: standardConc
Nomenclature: standardConc
Ontology Reference: NA
Category Set ID: NA
Unit Set: stdConcentrationUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

International Classification of Diseases

(icd). Classification system for diseases in humans.
Part Type: nomenclatures
Domain: bio
Speciment ID: poSpecimenSet
Compartment Set: humanCompartmentSet
Group: naGroup
Class: disease
Nomenclature: disease
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Intensive care unit patients

(icu). Units for describing a population measure of patients who are in intensive care due to a given cause. Unit for a population or disease measure to explain population-level clinical effects.
Part Type: units
Domain: bio
Speciment ID: poSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: integer
Missingness Set: NA
Minimum Value: 0
Maximum Value: NA
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Instrument table Shorthand

(in). The abbreviated short name used to reference the The table that contains information about instruments. table
Part Type: shortName
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.2.

Index

(index). Index number in case the measurement was taken multiple times.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 50
Part Status: active. First released: active. Last updated: 2.0.0.

Industrial input

(indusIn). Percentage of total wastewater input coming from industrial sources.
Part Type: measurements
Domain: phy
Speciment ID: siSpecimenSet
Compartment Set: waterCompartmentSet
Group: siteFeat
Class: physical
Nomenclature: physical
Ontology Reference: NA
Category Set ID: NA
Unit Set: volumeUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: integer
Missingness Set: genMissingnessSet
Minimum Value: 0
Maximum Value: NA
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Influent equilibration

(influEqui). Binary indicator for whether a site stores influent wastewater prior to treatment to equilibrate flow rates.
Part Type: measurements
Domain: phy
Speciment ID: siSpecimenSet
Compartment Set: waterCompartmentSet
Group: siteFeat
Class: physical
Nomenclature: physical
Ontology Reference: NA
Category Set ID: booleanSet
Unit Set: unitlessUnitSet
Aggregation Scale: qualAggScale
Quality Set: NA
Reference Link: NA
Data Type: boolean
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Inhibition set

(inhibitionSet). Category set for inhibition methods.
Part Type: mmaSets
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: procGrp
Class: pcr
Nomenclature: pcr
Ontology Reference: NA
Category Set ID: inhibitionSet
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Inhibition measure

(inhibMe). Parameter to report whether or not inhibition was detected in the sample. Detected = TRUE, not detected = FALSE.
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: miscMeas
Class: sequence
Nomenclature: sequence
Ontology Reference: NA
Category Set ID: NA
Unit Set: unitlessUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Inhibition method

(inhibMeth). Description of the method used to evaluate molecular inhibition. Description of the inhibition parameters.
Part Type: methods
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: measGrp
Class: pcr
Nomenclature: pcr
Ontology Reference: NA
Category Set ID: inhibitionSet
Unit Set: unitlessUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 100
Part Status: active. First released: active. Last updated: 2.0.0.

Innovaprep ultrafiltration

(innovaprepUF). Innovaprep ultrafiltration
Part Type: categories
Domain: che
Speciment ID: naSpecimenSet
Compartment Set: waterCompartmentSet
Group: procGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Input

(input). Input for a table. Indicates if a part can be used in a table. ‚Äö√Ñ√∫Input‚Äö√Ñ√π is used to indicate if a part can be used as an entry in a table (something with partType = table). For example, covN1 is a specific measure that can be entered in the measureID field of the measures table. Therefore, covN1 is has a value “input” in the measures column in the parts list. ODM users can generate their own custom template by modifying using the value “input” for only the parts that are applicable for their program.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Omicron Variant ins214epe Insertion

(ins214epe). Omicron Variant ins214epe Insertion
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: omicronGrp
Class: mutation
Nomenclature: mutation
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Instrument ID

(instrumentID). A unique identifier for an instrument.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 10
Part Status: active. First released: active. Last updated: 2.0.0.

Instrument table

(instruments). The table that contains information about instruments. adapt from verson 1 documentation
Part Type: tables
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: programDescr
Nomenclature: programDescr
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Instruments table column order

(instrumentsOrder). Specifies the order of the columns in the Instruments table.
Part Type: tableSupport
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: integer
Missingness Set: NA
Minimum Value: 1
Maximum Value: NA
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Instrutment table required headers

(instrumentsRequired). Specifies the columns required in the Instruments table.
Part Type: tableSupport
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Other instrument

(instrumentTypeOther). Type of instrument other than those included in the PHES-ODM. An other type of measurement instrument. Add description to notes. See documentation for how to request new instruments added to the dictionary.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Instrument Type

(insType). Type of instrument used to perform the measurement.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: insTypeSet
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Describe other instrument type, if applicable

(insTypeOth). Description of the instrument in case it is not listed in instrumentType.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 100
Part Status: active. First released: active. Last updated: 2.0.0.

Instrument set

(insTypeSet). List of instruments that are used for measures and methods
Part Type: mmaSets
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: insTypeSet
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Integrase Anti-microbial resistance Group

(intAMRGrp). The group for measures and methods pertaining to integrase-related anti-microbial resistance.
Part Type: groups
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: intAMRGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 50
Part Status: active. First released: active. Last updated: 2.1.0.

Integer data type

(integer). The data type for integers. Only used for the dictionary entries of parts.
Part Type: dataTypes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 15
Part Status: active. First released: active. Last updated: 2.0.0.

Integrase Class I gene target

(integraseCl1). Integrase anti-microbial resistance gene target.
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: intAMRGrp
Class: allele
Nomenclature: allele
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Intercept

(inter). Intercept value of the calibration curve. Used for storing calibration curve information, potentially also applicable for other curve types.
Part Type: units
Domain: allDo
Speciment ID: siSaSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: standardCurve
Nomenclature: standardCurve
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: float
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Combined ip2 and ip4 sars-cov-2 gene target

(ip2ip4). Combined ip2 and ip4 sars-cov-2 gene target
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: sarsCov2
Class: mutation
Nomenclature: mutation
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

ISC

(isc). The licensing for the measure or data set is managed under the ISC license.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: https://choosealicense.com/licenses/isc/
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

ISO639-1

(iso6391). The first part of the ISO 639 series of international standards for language codes. Part 1 covers the registration of two-letter codes. There are 183 two-letter codes registered as of June 2021. The registered codes cover the world’s major languages. Part of the metedata for a languageID.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

ISO639-2B

(iso6392B). A set of international standards that lists short codes for language names. These ISO639-2 are the three-letter codes defined in part two (ISO 639-2) of the standard, including the corresponding two-letter (ISO 639-1) codes where they exist. The ‘B’ specifies the bibliographic code (B code). Part of the metedata for a languageID.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

ISO639-2T

(iso6392T). A set of international standards that lists short codes for language names. These ISO639-2 are the three-letter codes defined in part two (ISO 639-2) of the standard, including the corresponding two-letter (ISO 639-1) codes where they exist. The ‘T’ specifies the terminological code (T code). Part of the metedata for a languageID.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

ISO639-3

(iso6393). A set of international standards that lists short codes for language names. ISO 639-3 extends the ISO 639-2 alpha-3 codes with an aim to cover all known natural languages. Part of the metedata for a languageID.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

ISO639-6

(iso6396). A set of international standards that lists short codes for language names. ISO 639-6 builds off ISO639-3 with the use of four-letter codes, and allowing users to differenciate between variants of languages and language families, such as histroical vs. revived versions of languages. Part of the metedata for a languageID.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

ISO 3166-1 alpha-2 country code

(isoCode). The ISO 3166-1 alpha-2 code, a two-letter country code which is also used to create the ISO 3166-2 country subdivision code and the Internet country code top-level domain. Preprogrammed into dictionary tables, not editable by users.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 2
Maximum Length: 2
Part Status: active. First released: active. Last updated: 2.1.0.

ISO 3166-1 alpha-3 country code

(isoCodeX). The ISO 3166-1 alpha-3 code, a three-letter country code which may allow a better visual association between the code and the country names than the 3166-1 alpha-2 code. Preprogrammed into dictionary tables, not editable by users.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 3
Maximum Length: 3
Part Status: active. First released: active. Last updated: 2.1.0.

ISO 3166-2 code for country sub-domain

(isoZone). The ISO 3166-2 codes for the names of the principal subdivisions (e.g., provinces, states, departments, regions) of all countries coded in ISO 3166-1. Preprogrammed into dictionary tables, not editable by users.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 4
Maximum Length: 6
Part Status: active. First released: active. Last updated: 2.1.0.

JN.1.7 Variant

(jn17V). The JN.1.7 variant of SARS-CoV-2, one of the FLiRT variants.
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: flirtSLipGrp
Class: variant
Nomenclature: variant
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

JN.1 Variant

(jn1V). The JN.1 variant is a subvariant of Omicron variant BA.2.86, and contains several mutations that are associated with escape from vaccine-mediated immune protection. The source of the FLiRT variants of SARS-CoV-2.
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: flirtSLipGrp
Class: variant
Nomenclature: variant
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

k856r omicron-variant gene target

(k856r). k856r omicron-variant gene target
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: sarsCov2
Class: mutation
Nomenclature: mutation
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Kilogram per second

(kgS). Kilograms per second.
Part Type: units
Domain: phy
Speciment ID: siSpecimenSet
Compartment Set: waterCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: float
Missingness Set: NA
Minimum Value: 0
Maximum Value: NA
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Kilolitres

(kl). Kilolitres of volume
Part Type: units
Domain: phy
Speciment ID: siSaSpecimenSet
Compartment Set: waterCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: float
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Klebsiella Group

(klebsiellaGrp). A group of measures/methods related to klbsiella bacteria. Used to describe the organism information for general measures.
Part Type: groups
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: klebsiellaGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Klebsiella pneumoniae

(klebsiellaPneu). Klebsiella pneumoniae
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: klebsiellaGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

KP.1.1 Variant

(kp11V). The KP.1.1 variant of SARS-CoV-2, one of the FLiRT variants.
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: flirtSLipGrp
Class: variant
Nomenclature: variant
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

KP.1 Variant

(kp1V). The KP.1 variant of SARS-CoV-2, one of the FLiRT variants.
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: flirtSLipGrp
Class: variant
Nomenclature: variant
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

KP.2 Variant

(kp2V). The KP.2 variant of SARS-CoV-2, one of the FLiRT variants.
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: flirtSLipGrp
Class: variant
Nomenclature: variant
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Litres

(l). Litres of volume
Part Type: units
Domain: phy
Speciment ID: siSaSpecimenSet
Compartment Set: waterCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: float
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Omicron Variant l24s mutation

(l24s). Omicron Variant l24s mutation
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: omicronGrp
Class: mutation
Nomenclature: mutation
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

l452r delta-variant gene target

(l452r). l452r delta-variant gene target
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: sarsCov2
Class: mutation
Nomenclature: mutation
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

L455S Mutation

(l455s). The FLiRT/SLip variant mutation L455S.
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: flirtSLipGrp
Class: mutation
Nomenclature: mutation
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

l981f omicron-variant gene target

(l981f). l981f omicron-variant gene target
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: sarsCov2
Class: mutation
Nomenclature: mutation
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Language Look-up table Shorthand

(la). The abbreviated short name used to reference the Look up table for all languages, used to give structure to the translation table. table
Part Type: shortName
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.2.

Laboratory

(lab). Laboratory for environmental testing.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Lab ID default depricated

(labDefDep). Used as default when a new sample is created by this reporter. See ID in Lab table. Deprecated as of version 2, no defaults please specify.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 10
Part Status: depreciated. First released: depreciated. Last updated: 2.0.0.

Laboratory duplicate

(labDuplicate). Second (time or more) processing and analysis of sample. Usually for general chemistry or metals analyses.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Label

(label). A human readable label of a part. Typically, a part label has no acrynomns (every word is spelled out). Equivalent to a LOINC common name.
Part Type: partSupport
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Lab ID

(labID). Unique identifier for a laboratory.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 10
Part Status: depreciated. First released: depreciated. Last updated: 2.1.0.

Lagoon system

(lagoon). Logoon system for extensive wastewater treatment
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: waterCompartmentSet
Group: colGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Lake, natural water body

(lake). Lake, natural water body
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: waterCompartmentSet
Group: colGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Lambda

(lamba). C.37
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: sarsCov2
Class: variant
Nomenclature: variant
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Land-based Transit Hub

(landTH). A transport hub is a place where passengers and cargo are exchanged between land-based vehicles and/or between land-based transport modes. Used when not greater detail can be provided
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: anyCompartmentSet
Group: colGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.3.

Language ID

(lang). Language code for translation purposes. Specifies the langage for each translation, other than the default English. Uses the ISO-6393 code. Follow the ISO639-3 codes for now.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Language family

(langFam). Specifies the language family of a given language for translation and language tracking purposes. Part of the metedata for a languageID.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Language name

(langName). Specifies the name of the language in roman alphabet characters for translation and language tracking purposes. Part of the metedata for a languageID.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

National language script

(langScript). The language(s) and script(s) used for the country‚Äö√Ñ√¥s capital endonyms. The scripts are listed in parenthesis, in the order of their appearance. Preprogrammed into dictionary tables, not editable by users.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 75
Part Status: active. First released: active. Last updated: 2.1.0.

Language Look-up table

(languages). Look up table for all languages, used to give structure to the translation table.
Part Type: tables
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: lookup
Nomenclature: lookup
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Language table column order

(languagesOrder). Specifies the order of the columns in the Languages table.
Part Type: tableSupport
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: integer
Missingness Set: NA
Minimum Value: 1
Maximum Value: NA
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Language table required headers

(languagesRequired). Required headers in the Languages table.
Part Type: tableSupport
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Last edited

(lastEdited). The date the entry was last updated. Use lastEdited if an entry is updated. Leave lastEdited blank or ‘NA’ for the first entry. Updates can include additions or revisions of the entry for any reason. For example, a wastewater measure was repeated later with an improved method. You can revise the entry by updating the value and then adding the date the new measure was performed to ‘lastEdited’. To ensure data provenance, the best practice in this example is to generate a new entry with the same measureID as the original measureID. The original and new measures are kept in the database with a date in the ‘lastEdited’ field for the new entry but not the original one. Some databases may choose a delete-and-replace approach where the original entry is deleted and replaced by a new entry. In this approach, the ‘lastEdited’ field indicates the delete and replace occurred.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: datetime
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Last name of contact

(lastName). Specifies the last name of a given contact.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Last updated version

(lastUpdated). The version in which the part was last updated. Any change to the part of list will result in a change in the lastUpdated field to the dictionary version where the update occurred.
Part Type: partSupport
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

LaTeX expression

(latExp). LaTeX expression used to generate formulas, symbols, etc. Mainly relevant for units.
Part Type: partSupport
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 20
Part Status: active. First released: active. Last updated: 2.0.0.

Latrine

(latrine). A toilet or outhouse, especially a communal one in a camp or barracks.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: waterCompartmentSet
Group: colGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.3.

Low breadth of coverage

(lBC). The percentage of the genome covered by reads (the breadth) is low.
Part Type: qualityIndicators
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Laboratory control sample duplicate

(lcsd). Known amounts of an analyte or representative compounds are added to a second “clean” matrix (lab water or clean sand) in laboratory. Duplicate of LCS
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Low depth of coverage

(lDC). Poor coverage, specifically an insufficient number of reads or too many sequencing reads that are mapped incorrectly.
Part Type: qualityIndicators
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Leaked sample

(leaked). Sample leaked, some volume and material was lost.
Part Type: qualityIndicators
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Legionella

(legionella). Legionella
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: legionellaGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Legionella Group

(legionellaGrp). A group of measures/methods related to legionella bacteria. Used to describe the organism information for general measures.
Part Type: groups
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: legionellaGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Lentivirus Group

(lentiGrp). A group of measures/methods related to lentiviruses, including viral vectors such as the Puro virus vector. Used to describe the organism information for general measures.
Part Type: groups
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: lentiGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

GNU Lesser General Public License v2.1

(lgpl21). The licensing for the measure or data set is managed under the GNU Lesser General Public License v2.1.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: https://choosealicense.com/licenses/lgpl-2.1/
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

GNU Lesser General Public License v3.0

(lgpl30). The licensing for the measure or data set is managed under the GNU Lesser General Public License v3.0.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: https://choosealicense.com/licenses/lgpl-3.0/
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

License

(license). The license of a dataset. Specify the dataset’s license name or provide a description of the license. Individual measures may possess their own licenses, which take precedence over the overall database license.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: licSet
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Data license set

(licSet). The set to describe valid categorical values for the licensing fields for measures or datasets.
Part Type: mmaSets
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: https://choosealicense.com/appendix/
Data Type: categorical
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Linear scale aggregation set

(linearAggrSet). The aggregation set that contains all aggregations that exist on the linear scale.
Part Type: aggregationSets
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Liquid fraction

(liq). Liquid fraction of a sample.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: waterCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Liquid/Supernatant retained

(liquid). The liquid or supernatant is retained after solid separation/centrifugation.
Part Type: categories
Domain: phy
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: procGrp
Class: standardConc
Nomenclature: standardConc
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Listeria

(listeria). Listeria
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: listeriaGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Listeria Group

(listeriaGrp). A group of measures/methods related to listeria bacteria. Used to describe the organism information for general measures.
Part Type: groups
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: listeriaGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

List worksheet

(lists). Parts lists for template dropdowns and other documentation. Sheets or tabs for the ODM Excel dictionary include: all ERD tables (look-up tables and data entry tables) and additional supportig tables.
Part Type: dictionarySupport
Domain: naDomain
Speciment ID: saSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

List set

(listSet). PartTypes that contain categories, sets, or lists. Used to generate documentation.
Part Type: dictSets
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: airCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Access to local ha

(localHA). If this is ‘no’, the, data will not be available to local health authorities. If missing, data will be available to local health authorities.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: booleanSet
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: boolean
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 1
Part Status: depreciated. First released: depreciated. Last updated: 2.0.0.

Limit of detection (LOD)

(lod). Limit of detection, ie. the minimum level of a genetic target.
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: procGrp
Class: pcr
Nomenclature: pcr
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Limit of detection (LOD) - sewage

(lodSewa). Limit of detection, ie. the minimum level of a genetic target, for sewage samples.
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: waterCompartmentSet
Group: procGrp
Class: pcr
Nomenclature: pcr
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

log10 gene copies per g

(log10cpG). Unit for log10 copies per gram
Part Type: units
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: integer
Missingness Set: NA
Minimum Value: 0
Maximum Value: NA
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

log10 gene copies per L

(log10cpL). Unit for log10 copies per litre
Part Type: units
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: integer
Missingness Set: NA
Minimum Value: 0
Maximum Value: NA
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

log10 gene copies per mL

(log10cpml). Unit for log10 copies per mililitre
Part Type: units
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: integer
Missingness Set: NA
Minimum Value: 0
Maximum Value: NA
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

log10 micrograms per g

(log10ugG). Unit for log10 micrograms per gram
Part Type: units
Domain: allDo
Speciment ID: siSaSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: standardConc
Nomenclature: standardConc
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: integer
Missingness Set: NA
Minimum Value: 0
Maximum Value: NA
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

log10 micrograms per L

(log10ugL). Unit for log10 micrograms per litre
Part Type: units
Domain: allDo
Speciment ID: siSaSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: standardConc
Nomenclature: standardConc
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: integer
Missingness Set: NA
Minimum Value: 0
Maximum Value: NA
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Logarithmic scale aggregation set

(logAggrSet). The aggregation set that contains all aggregations that exist on the logarithmic scale (rather than linear or qualitative).
Part Type: aggregationSets
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Dictionary tables

(lookup). Tables to describe and support the ODM dictionary. These tables hold information on sets, all parts, and support multiple languages and translations. The tables are updated by the ODM development team when a new ODM version is created.
Part Type: classes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: lookup
Nomenclature: lookup
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Limit of quantification (LOQ)

(loq). Loq Limit of quantification (LOQ) for this method if one exists.
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: procGrp
Class: pcr
Nomenclature: pcr
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Low severity

(low). A marker for low severity
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Lower limit of a 95% confidence interval

(lowerCI95). Specifies the the lower limit of a 95% confidence interval. Should typically be linked to an upper limit, and some indication of data spread (ie. standard deviation), and a mean/median measure.
Part Type: aggregations
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Low-volume sample

(lowVol). Sample is low-volume, but was run regardless.
Part Type: qualityIndicators
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Omicron Variant LPPA24S mutation

(lppa24s). Omicron Variant LPPA24S mutation
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: omicronGrp
Class: mutation
Nomenclature: mutation
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

LaTeX Project Public License v1.3c

(lppl13c). The licensing for the measure or data set is managed under the LaTeX Project Public License v1.3c.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: https://choosealicense.com/licenses/lppl-1.3c/
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Long-term care facility

(ltcf). A residential healthcare facility that provides 24-medical care. These are also called skilled nursing facilities.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Long-term care - assisted living or retirement home

(ltcfAl). A residential facility that provides assistance with daily care but generally does not provide skilled nursing care.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Other long-term care

(ltcfO). Other residential facilities that provide daily and/or medical care, but are not defined as nursing home/skilled nursing facilities or assisted living facilities.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Life technologies digital PCR

(ltDpcr). Describes a PCR analysis done using Life Technologies’ digital PCR technology.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

luminultra wastewater extraction kit

(luminWWExtract). luminultra wastewater extraction kit
Part Type: categories
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: procGrp
Class: mutation
Nomenclature: mutation
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Lysis buffer

(lysi). Lysis buffer.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Cubic metres per day

(m3D). Cubic metres per day.
Part Type: units
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: float
Missingness Set: NA
Minimum Value: 0
Maximum Value: NA
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Cubic metres per hour

(m3H). Cubic metres per hour.
Part Type: units
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: float
Missingness Set: NA
Minimum Value: 0
Maximum Value: NA
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Cubic metres per second

(m3S). Cubic metre per second.
Part Type: units
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: float
Missingness Set: NA
Minimum Value: 0
Maximum Value: NA
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Plasmodium or Malaria Group

(malariaGrp). A group of measures/methods related to plasmodium parasites or malaria. Used to describe the organism information for general measures.
Part Type: groups
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: malariaGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Manual Composite Sample

(manComp). Specifies a composite sample where the sub-samples were collected manually.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Manufacturer

(manufacturer). Manufacturer of an instrument.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 100
Part Status: active. First released: active. Last updated: 2.0.0.

Mate pair layout

(mateLay). Specifies the mate pair layout for a sequencing method.
Part Type: categories
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Maximum length

(maxLength). The maximum length of the value of a part or measure.
Part Type: partSupport
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: integer
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Maximum value

(maxVal). Highest value in a range of values for a measure.
Part Type: aggregations
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Maximum value part support

(maxValue). The maximum value of a part.
Part Type: partSupport
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

MCR-1.1 Colistin-resistence gene target

(mcr11). The MCR-1.1 colistin anti-microbial resistance gene target.
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: colAMRGrp
Class: allele
Nomenclature: allele
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: https://www.mediterranee-infection.com/acces-ressources/base-de-donnees/arg-annot-2/
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Arithmetic mean

(me). Arithmetic mean.
Part Type: aggregations
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Measurement group

(measGrp). A group of measures that cannot be otherwise categorized.
Part Type: groups
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Measles

(measles). Measles
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: measlesGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Measles Group

(measlesGrp). A group of measures/methods related to the measles virus. Used to describe the organism information for general measures.
Part Type: groups
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: measlesGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Other Measure

(measOth). Other measure, not otherwise specified in measures. Add description to categoryOther.
Part Type: measurements
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: NA
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: depreciated. First released: depreciated. Last updated: 2.0.0.

Measures quality set

(measQualitySet). A quality set for any measure, includes all the quality flag options for any measure. Used as an “any quality set” for measures, but excludes the sample quality flags to avoid confusion and data entry errors.
Part Type: qualityIndSets
Domain: naDomain
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Measure

(measure). A measurement or observation of any substance including a biological, physical or chemical substance. An measurement is recorded from a specimen (i.e. a site, sample, person or population). Measures are organized into groups and classes (sub-groups).
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 12
Part Status: active. First released: active. Last updated: 2.0.0.

Measure input (wide table)

(measureInput). The partID for the measure being used in a wide name.
Part Type: attributes
Domain: allDo
Speciment ID: anySpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Measure license

(measureLic). Specifies the access and use licensing for a given single measurement. Populated by partID = licenseID
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: licSet
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Measures

(measurements). The attribute to describe a part type of measures. All measures have `partType` = “measure”.
Part Type: partType
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Measure name (wide table)

(measureName). The measure referenced for the wide name.
Part Type: attributes
Domain: allDo
Speciment ID: anySpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Report ID

(measureRepID). Unique identifier for a measurement. Report IDs cannot be repeated.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Measure report table

(measures). The table that contains information and details about a given measure adapt from verson 1 documentation
Part Type: tables
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: results
Nomenclature: results
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Measure set report set ID

(measureSetRepID). Unique identifier that links together a group of related measures.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Measure set report table

(measureSets). The table that identifies sets of measures. Examples of measure sets include a set of replicates, dilutions (used to generate a Ct curve) or varients that are identified in a single sample.
Part Type: tables
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: results
Nomenclature: results
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Measure sets table column order

(measureSetsOrder). Specifies the order of the columns in a Measure Sets table.
Part Type: tableSupport
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: integer
Missingness Set: NA
Minimum Value: 1
Maximum Value: NA
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Measure Set table required headers

(measureSetsRequired). Specifies the columns required in a Measure Sets table.
Part Type: tableSupport
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Measures table column order

(measuresOrder). Specifies the order of the columns in a Measures table.
Part Type: tableSupport
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: integer
Missingness Set: NA
Minimum Value: 1
Maximum Value: NA
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Measures table required headers

(measuresRequired). Specifies the columns required in a Measures table.
Part Type: tableSupport
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Median

(med). Median.
Part Type: aggregations
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

membrane filtration with addition of mgcl3

(memMgCl3). membrane filtration with addition of mgcl3
Part Type: categories
Domain: phy
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: procGrp
Class: standardConc
Nomenclature: standardConc
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Normalized arithmetic mean

(menr). Arithmetic mean, normalized.
Part Type: aggregations
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Other Measure Description

(meOthDe). Description of other measure (measOtherDesc).
Part Type: measurements
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: NA
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 60
Part Status: depreciated. First released: depreciated. Last updated: 2.0.0.

Measures Part-type Shorthand

(mes). The abbreviated short name used to reference the The attribute to describe a part type of measures. All measures have `partType` = “measure”. part type
Part Type: shortName
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.2.

Methods part-type Shorthand

(met). The abbreviated short name used to reference the Procedures or steps for collecting samples or performing measures. part type
Part Type: shortName
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.2.

Metabolite Group

(metaboliteGrp). A group of measures/methods related to metabolites.
Part Type: groups
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: metaboliteGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Method

(method). A procedure for collecting a sample or performing a measure.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 10
Part Status: active. First released: active. Last updated: 2.0.0.

Concentration method

(methodConc). Description of the method to concentrate a wastewater sample. Description of the method used to concentrate the sample
Part Type: methods
Domain: allDo
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: procGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: methodConcSet
Unit Set: unitlessUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 100
Part Status: active. First released: active. Last updated: 2.0.0.

Concentration method set

(methodConcSet). A set a concentration methods.
Part Type: mmaSets
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Method input (wide table)

(methodInput). The partID for the method being used in a wide name.
Part Type: attributes
Domain: naDomain
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Method name (wide table)

(methodName). The method referenced for the wide name.
Part Type: attributes
Domain: naDomain
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Methods

(methods). Procedures or steps for collecting samples or performing measures. For example, `methodExtract` is a method that describes the how a sample was extracted.
Part Type: partType
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Membrane filtration with acidification and mgcl2

(mfAcidmgcl2). Membrane filtration with acidification and mgcl2
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Membrane filtration with acidification and mgcl2, membrane recombined with separated solids

(mfAcidmgcl2SS). Membrane filtration with acidification and mgcl2, membrane recombined with separated solids
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Membrane filtration with addition of mgcl2

(mfMgcl2). Membrane filtration with addition of mgcl2
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Membrane filtration with mgcl2 and separated solids

(mfMgcl2SS). Membrane filtration with addition of mgcl2, membrane recombined with separated solids
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Membrane filtration with no amendment

(mfNoAmend). Membrane filtration with no amendment
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Membrane filtration with no amendment, membrane recombined with separated solids

(mfNoAmendSS). Membrane filtration with no amendment, membrane recombined with separated solids
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Membrane filtration with sample acidification

(mfSampleAcid). Membrane filtration with sample acidification
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Membrane filtration with sample acidification, membrane recombined with separated solids

(mfSampleAcidSS). Membrane filtration with sample acidification, membrane recombined with separated solids
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Millions of gallons per day (MG/D)

(mgd). A unit for measuring of design capacity for wastewater treatment plants, represented as millions of gallons per day. Also can be used to measure flow.
Part Type: units
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: float
Missingness Set: NA
Minimum Value: 0
Maximum Value: NA
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Mycoplasma genitalus

(mGenitalus). Mycoplasma genitalus
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: mycoplasmaGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Milligrams per litre

(mgL). Milligrams per litre.
Part Type: units
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: float
Missingness Set: NA
Minimum Value: 0
Maximum Value: NA
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Murine Hepatitis Virus

(mhv). A measure for amount of murine hepatitis viurs.
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: hepGrp
Class: allele
Nomenclature: allele
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

murine hepatitis virus (MHV) spike target

(mhvSpike). Murine hepatitis virus is used as the recovery efficiency control target.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Multiple issues

(mI). Multiple issues have arisen in the sequencing process. When using the ‘multiple issues’ quality flag, please specify the issues and details in the notes section.
Part Type: qualityIndicators
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Mid-level severity

(mid). A marker for med-level severity, where there are some concerns.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Minimum length

(minLength). The maximum value of measure.
Part Type: partSupport
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: integer
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Minutes

(minutes). A unit for indicating a length of time in minutes.
Part Type: units
Domain: allDo
Speciment ID: anySpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: time
Nomenclature: time
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: integer
Missingness Set: NA
Minimum Value: 0
Maximum Value: NA
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Minimum value

(minVal). Lowest value in a range of values for a measure.
Part Type: aggregations
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Minimum value part support

(minValue). The minimum value of part.
Part Type: partSupport
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Miscellaneous attribute group

(miscAttr). A group of miscellaneous measurement-like attributes. Examples of these would be longitude and latitude, or EPSG coordinates.
Part Type: groups
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Miscellaneous measure group

(miscMeas). A group of measures that cannot be otherwise categorized.
Part Type: groups
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Missingness

(missingness). The part type for missingness values. Only used for the dictionary entries of parts.
Part Type: partType
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 15
Part Status: active. First released: active. Last updated: 2.0.0.

Missingness Set

(missingnessSet). Missingness sets for measures, methods or attributes. Inputted data into an ODM field may have missing data. The missingness set lists valid missing categories for the measure, method, or attribute.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 15
Part Status: active. First released: active. Last updated: 2.0.0.

Missingness sets

(missingnessSets). Set of missingness values. Examples of missingness sets may include NR or NA esclusive sets, or general all-purpose sets.
Part Type: partType
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 15
Part Status: active. First released: active. Last updated: 2.0.0.

MIT

(mit). The licensing for the measure or data set is managed under the MIT license.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: https://choosealicense.com/licenses/mit/
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

MIT No Attribution

(mit0). The licensing for the measure or data set is managed under the MIT no attribution license.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: https://choosealicense.com/licenses/mit-0/
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Mixed/homogenized sample

(mix). Mixed or homogenized sample or fraction analyzed.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Millilitres

(ml). Millilitres of volume
Part Type: units
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: float
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Megalitres per day (ML/d)

(mld). Megalitres per day.
Part Type: units
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: float
Missingness Set: NA
Minimum Value: 0
Maximum Value: NA
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Method Limit of Detection (LOD)

(mlod). The minimum level of a target necessary for its consistent detection considering all sample processing steps as in the definition of SLOD), but considering biases attributable to method losses. The MLOD is experimentally determined using a rigorous and iterative testing approach and it is sensitive to the recovery surrogate used and the sample matrix encountered.
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: procGrp
Class: pcr
Nomenclature: pcr
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Millimetres

(mm). Unit part for the SI unit of millimetres.
Part Type: units
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: float
Missingness Set: NA
Minimum Value: 0
Maximum Value: NA
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Measure, Method, or Attribute Set Header

(mmaSet). The set for a measure, method, or attribute. Only applicable for categorical fields, and the categories that populate them.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 12
Part Status: active. First released: active. Last updated: 2.0.0.

Measure, method, or attribute sets

(mmaSets). A set of categories. For example, site type has a list of different sites, such as a wastewater treatment plant, a septic tank, or a pumping station. Only used for the dictionary entries of parts.
Part Type: partType
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 15
Part Status: active. First released: active. Last updated: 2.0.0.

Model

(model). Model number or version of the instrument.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 100
Part Status: active. First released: active. Last updated: 2.0.0.

monarch total RNA miniprep kit (new england biolabs) + onestep PCR inhibitor removal kit (zymo)

(monarchRNA). monarch total RNA miniprep kit (new england biolabs) + onestep PCR inhibitor removal kit (zymo)
Part Type: categories
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: procGrp
Class: mutation
Nomenclature: mutation
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Months

(months). A unit for indicating a length of time in months.
Part Type: units
Domain: allDo
Speciment ID: anySpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: time
Nomenclature: time
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: integer
Missingness Set: NA
Minimum Value: 0
Maximum Value: NA
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Moore swab passive sample

(moorSw). Moore swab passive sample. Use collectionPeriod to describe how many hours the Moore swab was used to collect the sample
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Mozilla Public License 2.0

(mpl20). The licensing for the measure or data set is managed under the Mozilla Public License 2.0.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: https://choosealicense.com/licenses/mpl-2.0/
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Mpox

(mpox). The virus known as Mpox, previously also known as Monkey Pox.
Part Type: measurements
Domain: bio
Speciment ID: poSaSpecimenSet
Compartment Set: anyCompartmentSet
Group: mpoxGrp
Class: allele
Nomenclature: allele
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.1.0.

MPox Clade I Group

(mpoxCldIGrp). A group of measures/methods related to Mpox Clade I (formerly “Monkey Pox”). Used to describe the organism information for general measures.
Part Type: groups
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: mpoxCldIGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

MPox Clade II Group

(mpoxCldIIGrp). A group of measures/methods related to Mpox Clade II (formerly “Monkey Pox”). Used to describe the organism information for general measures.
Part Type: groups
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: mpoxCldIIGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

MPox Group

(mpoxGrp). A group of measures/methods related to Mpox (formerly “Monkey Pox”). Used to describe the organism information for general measures.
Part Type: groups
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: mpoxGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Metres per second

(mps). metres per second.
Part Type: units
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: float
Missingness Set: NA
Minimum Value: 0
Maximum Value: NA
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Metapneumovirus Group

(mpvGrp). A group of measures/methods related to metapneumoviruses. Used to describe the organism information for general measures.
Part Type: groups
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: mpvGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Mpox B6R Gene Target

(mpxB6R). Human MPox Virus (hMPXV) gene target. Envelope protien gene CDC Assay; selective for MPXV.
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: mpoxGrp
Class: allele
Nomenclature: allele
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: https://doi.org/10.1016/j.jcv.2006.03.012
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Clade I Mpox C3L Gene Target

(mpxC3L). Human MPox Virus (hMPXV) Clade I gene target. hMPXV C3L primers and‚Äö√Ñ√òprobe‚Äö√Ñ√òdetect Clade I viruses.
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: mpoxCldIGrp
Class: allele
Nomenclature: allele
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: https://doi:10.1016/j.jviromet.2010.07.012
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Mpox Clade I

(mpxClI). The virus known as Mpox, previously also known as Monkey Pox, Clade I virus type.
Part Type: measurements
Domain: bio
Speciment ID: poSaSpecimenSet
Compartment Set: anyCompartmentSet
Group: mpoxCldIGrp
Class: variant
Nomenclature: variant
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.3.

Mpox Clade II

(mpxClII). The virus known as Mpox, previously also known as Monkey Pox, Clade II virus type.
Part Type: measurements
Domain: bio
Speciment ID: poSaSpecimenSet
Compartment Set: anyCompartmentSet
Group: mpoxCldIIGrp
Class: variant
Nomenclature: variant
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.3.

Mpox & Orthopox E9L-NVAR Gene Target

(mpxe9lNVAR). Human MPox Virus (hMPXV) gene target for Orthopoxvirus DNA polymerase. CDC Assay detects all hMPXV‚Äö√Ñ√£ clades and non-variola Orthopox viruses.
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: mpoxGrp
Class: allele
Nomenclature: allele
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: https://doi.org/10.1016/j.jcv.2006.03.012
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Mpox & Orthopox E9L-OPX3 Gene Target

(mpxe9lOPX3). Human MPox Virus (hMPXV) gene target using the generic orthopox virus OPX3. Lower sensitivity for MPox.
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: mpoxGrp
Class: allele
Nomenclature: allele
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: https://doi.org/10.4269/ajtmh.2010.09-0716
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Mpox Clade I F3L Gene Target

(mpxF3L). Human MPox Virus (hMPXV) Clade I gene target, F3L
Part Type: measurements
Domain: bio
Speciment ID: poSaSpecimenSet
Compartment Set: anyCompartmentSet
Group: mpoxCldIGrp
Class: allele
Nomenclature: allele
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.3.

Mpox G2R-G Gene Target

(mpxG2RG). Human MPox Virus (hMPXV) gene target using the G2R_G primers and‚Äö√Ñ√òprobe which ‚Äö√Ñ√òdetects all MPox Virus strains‚Äö√Ñ√ò‚Äö√Ñ√£.
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: mpoxGrp
Class: allele
Nomenclature: allele
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: https://doi.org/10.1016/j.jviromet.2010.07.012
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Mpox G2R-NML Gene Target

(mpxG2RNML). Human MPox Virus (hMPXV) gene target using the G2R_NML primers and probe which  detects all MPox Virus strains .
Part Type: measurements
Domain: bio
Speciment ID: poSaSpecimenSet
Compartment Set: anyCompartmentSet
Group: mpoxGrp
Class: allele
Nomenclature: allele
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.3.

Clade II Mpox G2R-WA Gene Target

(mpxG2RWA). Human MPox Virus (hMPXV) Clade II gene target, measured with G2R_WA primers and probe to detects Clade II viruses.
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: mpoxCldIIGrp
Class: allele
Nomenclature: allele
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: https://doi:10.1016/j.jviromet.2010.07.012
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Mpox GT Molecular Gene Target

(mpxGTmol). Human MPox Virus (hMPXV) gene target - this specific measure and gene target are proprietary to GT Molecular
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: mpoxGrp
Class: allele
Nomenclature: allele
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Measure report table Shorthand

(mr). The abbreviated short name used to reference the The table that contains information and details about a given measure table
Part Type: shortName
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.2.

Methicillin-resistant Staphylococcus aureus (MRSA)

(mrsa). Methicillin-resistant Staphylococcus aureus (MRSA)
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: staphGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Measure set report table Shorthand

(ms). The abbreviated short name used to reference the The table that identifies sets of measures. table
Part Type: shortName
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.2.

ms2 coliphage

(ms2Col). Measure of the amount of ms2 coliphage.
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: phageGrp
Class: allele
Nomenclature: allele
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

ms2 coliphage spike target

(ms2ColMat). ms2 coliphage is used as the recovery efficiency control target.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Matrix spike duplicate

(msd). A known amounts of an analyte or representative compounds are added in the laboratory to a second aliquot of the sample used for matrix spike.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Microsoft Public License

(mspl). The licensing for the measure or data set is managed under the Microsoft Public License.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: https://choosealicense.com/licenses/ms-pl/
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Moore swab passive sample depreciated

(mspsDep). Moore swab passive sample. Deprecated in version 2, please do not use.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: NA
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: depreciated. First released: depreciated. Last updated: 2.0.0.

Major sewer pipeline

(mSwrPpl). Major sewer pipeline
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Mycobacterium tuberculosis

(mTuberculosis). Mycobacterium tuberculosis
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: tuberculosisGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Mu

(mu). B.1.621
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: sarsCov2
Class: variant
Nomenclature: variant
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

murine coronavirus

(muCo). Measure of the amount of murine coronavirus.
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: betaCoronaGrp
Class: allele
Nomenclature: allele
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

murine coronavirus spike target

(muCoMat). Murine coronavirus is used as the recovery efficiency control target.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Multiple fraction

(mul). Multiple fractions were analyzed separately and aggregated together post-analysis. This fractionID is intended for use for archival data and should not be used for newly added new moving forward (2022). Please also specify in the notes section which fractions were used for the multiple fractions (ex. solid and liquid) to avoid loss of information.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: waterCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Mulan Permissive Software License, Version 2

(mulanPSL20). The licensing for the measure or data set is managed under version 2 of the Mulan Permissive Software License.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: https://choosealicense.com/licenses/mulanpsl-2.0/
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Multiple Purpose

(multiple). A measure or sample taken for multiple purposes, not easily captured by the other purpose categories. Useful for parent samples where various subsamples will have different purposes/
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Mumps

(mumps). Mumps
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: mumpsGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Mumps Group

(mumpsGrp). A group of measures/methods related to the mumps virus. Used to describe the organism information for general measures.
Part Type: groups
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: mumpsGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Municipalities or communes

(municipalLevel). Municipalities or communes
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: nrNAMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: depreciated. First released: depreciated. Last updated: 2.1.0.

Municipality

(municp). A complete municipality, this specifies an entire metropolitan area, either a city, town, etc.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Mutations class

(mutation). Measures and methods related to mutations.
Part Type: classes
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: mutation
Nomenclature: mutation
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Mycoplasma Group

(mycoplasmaGrp). A group of measures/methods related to mycoplasma bacteria. Used to describe the organism information for general measures.
Part Type: groups
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: mycoplasmaGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

N sars-cov-2 gene target

(n). N sars-cov-2 gene target
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: sarsCov2
Class: allele
Nomenclature: allele
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Combined N1 and N2 sars-cov-2 gene target

(n1n2). Combined N1 and N2 sars-cov-2 gene target
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: sarsCov2
Class: mutation
Nomenclature: mutation
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Influenza A N1 neuraminidase gene

(n1neur). Measure of the N1 neuraminidase gene from the Highly Pathogenic Avian Influenza Virus (HPAIV), the H5N1 Influenza A Virus (IAV) subtype.
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: fluAGrp
Class: allele
Nomenclature: allele
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Omicron Variant n211i mutation

(n211i). Omicron Variant n211i mutation & gene target.
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: omicronGrp
Class: mutation
Nomenclature: mutation
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Omicron Variant n679k mutation

(n679k). Omicron Variant n679k mutation & gene target.
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: omicronGrp
Class: mutation
Nomenclature: mutation
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Omicron Variant n856k mutation

(n856k). Omicron Variant n856k mutation & gene target.
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: omicronGrp
Class: mutation
Nomenclature: mutation
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Omicron Variant n969k mutation

(n969k). Omicron Variant n969k mutation & gene target.
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: omicronGrp
Class: mutation
Nomenclature: mutation
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Not applicable

(NA). The field for which the expected value is not a property of the described object. Missing value indicator for missing data with no explanation.
Part Type: missingness
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Aggregation not applicable

(naAggr). Not applicable for aggregations. Used for parts for which an aggregation value is not applicable or appropriate.
Part Type: aggregations
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Aggregation scale not applicable

(naAggrScale). Not application for aggregation sets. Used for parts for which an aggregation scale value is not applicable or appropriate.
Part Type: aggregationScales
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Aggregation set not applicable

(naAggrSet). Not application for aggregation sets. Used for parts for which an aggregation set value is not applicable or appropriate.
Part Type: aggregationSets
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Class not applicable

(naClass). Class is not applicable. Use this for all parts that don’t have classes (most non-measure or method parts)
Part Type: classes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Compartment not applicable

(naCompartment). Compartment not applicable.
Part Type: compartments
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 15
Part Status: active. First released: active. Last updated: 2.0.0.

Compartment set not applicable

(naCompartmentSet). Compartment not applicable.
Part Type: compartmentSets
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 13
Part Status: active. First released: active. Last updated: 2.0.0.

Domain not applicable

(naDomain). Not applicable. Use ‘not applicable’ when there is no domain for the part
Part Type: domains
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Group not applicable

(naGroup). Used when there is no group; ie. group is not applicable. Use ‘not applicable’ when there is no group for the part
Part Type: groups
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Name

(name). Name of a domain, specimen, group, class, attribute, unit, nomeclature or other entity. Name of any entity. Use a prefix to distinguish names from different report tables. See fully specified name (FSN) list. i.e. Si-name = Site name, Po-name = Polygon name, Or-name = Organization name, Me-name = Method-name.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

English name for countries

(nameEngl). English-language name of a given country. Preprogrammed into dictionary tables, not editable by users.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 75
Part Status: active. First released: active. Last updated: 2.1.0.

Official state name

(nameOfficial). Official english-language name of a given state. Preprogrammed into dictionary tables, not editable by users.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 75
Part Status: active. First released: active. Last updated: 2.1.0.

Not a number

(nan). The outcome of a measurement is not a valid number (plus or minus infinity, error, …) Missing values indicator for when a numeric value is expected but not given.
Part Type: missingness
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Nomenclature not applicable

(naNomenclature). Not applicable. Use ‘not applicable’ when there is no nomenclature for the part
Part Type: nomenclatures
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Specimen not applicable

(naSpecimen). Non applicable specimen. Use ‘not applicable’ when there is no specimen/set for the part
Part Type: specimens
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Specimen set not applicable

(naSpecimenSet). A specimen set for when specimen/specimen set is not applicable. Use ‘not applicable’ when there is no specimen/set for the part
Part Type: specimenSets
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Native Name

(natName). The native name of the language, i.e. what the language is called by its speakers. Part of the metedata for a languageID.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Unit not applicable

(naUnit). Not appliable for units.
Part Type: units
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Unit set not applicable

(naUnitSet). Not applicable for unit sets.
Part Type: unitSets
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

National Center for Biotechnology Information

(ncbi). NCBI header
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Nomenclaturre from the NCBI

(ncbiNom). Nomenclaturre from the National Center for Biotechnology Information
Part Type: nomenclatures
Domain: naDomain
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

NCBI - notes

(ncbiNotes). NCBI notes
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

University of Illinois/NCSA Open Source License

(ncsa). The licensing for the measure or data set is managed under the University of Illinois/NCSA Open Source License.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: https://choosealicense.com/licenses/ncsa/
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Neighbourhood

(neigh). A municipal neighbourhood, this specifies a sub-section of a larger municipality.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Local administrative units or neighborhoods

(neighborLevel). Local administrative units or neighborhoods
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: nrNAMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: depreciated. First released: depreciated. Last updated: 2.1.0.

Population of newly vaccinated persons

(newVax). Population of newly vaccinated persons A unit used for for specifying a population-wide vaccination level measure.
Part Type: units
Domain: naDomain
Speciment ID: poSpecimenSet
Compartment Set: humanCompartmentSet
Group: popGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: integer
Missingness Set: NA
Minimum Value: 0
Maximum Value: NA
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

NextClade nomenclature

(nextclade). Specifies variant or genetic nomenclature as set out by NextClade.
Part Type: nomenclatures
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Normalized geometric mean

(ngmn). Geometric mean, normalized.
Part Type: aggregations
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Neisseria gonorrhoeae

(nGonorrhoeae). Neisseria gonorrhoeae
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: gonococcusGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Ammonium Nitrogen

(nH4N). Ammonium nitrogen concentration, as N.
Part Type: measurements
Domain: che
Speciment ID: siSaSpecimenSet
Compartment Set: waterCompartmentSet
Group: waterQualityGrp
Class: standardConc
Nomenclature: standardConc
Ontology Reference: NA
Category Set ID: NA
Unit Set: stdConcentrationUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

niid_2019-ncov_n sars-cov-2 gene target

(niid19). niid_2019-ncov_n sars-cov-2 gene target
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: sarsCov2
Class: mutation
Nomenclature: mutation
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Nano-molar

(nM). the unit of nanomolar.
Part Type: units
Domain: che
Speciment ID: siSaSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: standardConc
Nomenclature: standardConc
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

No quality concerns

(noConcern). A flag to indicate there is are no quality concern about the measure or sample.
Part Type: qualityIndicators
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Sample not labelled

(noLabel). Sample had no label
Part Type: qualityIndicators
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

No liquid concentration, liquid recombined with separated solids

(noliquid). No liquid concentration, liquid recombined with separated solids
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Nomenclature

(nomenclature). A classification system to report the measure class. Only applicable to variants, mutations, and diseases. Currently only used for class = variant, mutation, or disease. Valid options are currently restricted to ‘NextClade’, ‘Pangolin’, ‘WHO’, or ‘ICD’.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Nomenclatures

(nomenclatures). A classification system to report the measure class. See partID = nomenclatureID.
Part Type: partType
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

No rain

(noRain). Qualitative category for the weather measure, specifying no rainfall for a given day.
Part Type: categories
Domain: phy
Speciment ID: siSpecimenSet
Compartment Set: anyCompartmentSet
Group: siteFeat
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

NORMAN

(norman). NORMAN header
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

NORMAN - notes

(normanNote). Norman notes
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Norovirus

(noro). Norovirus.
Part Type: measurements
Domain: bio
Speciment ID: poSaSpecimenSet
Compartment Set: anyCompartmentSet
Group: noroGrp
Class: allele
Nomenclature: allele
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.1.0.

Norovirus G1

(noroG1). Norovirus genogroup 1
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: noroGrp
Class: allele
Nomenclature: allele
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Norovirus G2

(noroG2). Norovirus genogroup 2
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: noroGrp
Class: allele
Nomenclature: allele
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Norovirus GI Group

(noroGIGrp). A group of measures/methods related to norovirus GI. Used to describe the organism information for general measures.
Part Type: groups
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: noroGIGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Norovirus GII Group

(noroGIIGrp). A group of measures/methods related to norovirus GII. Used to describe the organism information for general measures.
Part Type: groups
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: noroGIIGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Norovirus Group

(noroGrp). A group of measures/methods related to noroviruses. Used to describe the organism information for general measures.
Part Type: groups
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: noroGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

No Seperation or Concentration

(noSep). Denoted that a sample did not undergo a solids separation protocol, or did not undergo a sample concentration protocol.
Part Type: categories
Domain: phy
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: procGrp
Class: standardConc
Nomenclature: standardConc
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Notes

(notes). A note used to describe details that are not captured in other attrbitutes There is no recommended structure of a note. Use notes as needed.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 200
Part Status: active. First released: active. Last updated: 2.0.0.

Sample missing time stamp

(noTime). Sample is missing the autosampler time; incomplete metadata on collection.
Part Type: qualityIndicators
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Not reported

(nr). A value could have been recorded, however, it was not. Missing value indicator for data that is absent because it was not reported.
Part Type: missingness
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Not reported, Not applicable missing set

(nrNAMissingnessSet). Not reported, Not applicable missing set.
Part Type: missingnessSets
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Sarbecovirus-specific N sars-cov-2 gene target

(nSarbec). Sarbecovirus-specific N sars-cov-2 gene target
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: sarsCov2
Class: allele
Nomenclature: allele
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

NTC Amplification Detected

(ntcAmp). Quality flag for when the non-template control (NTC) still sees amplification - ie. The NTCs in qPCR show a Ct value less than 40, or NTCs in a ddPCR have 3 or more positive droplets.
Part Type: qualityIndicators
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Nephelometric turbidity unit

(ntu). Nephelometric Turbidity Units, a unit used in the measurement of turbidity (see “turbidity” under measureIDs). Nephelometric turbidity units (NTU) are based on white light (400‚Äö√Ñ√¨680nm) and 90¬¨‚àû incident angle.
Part Type: units
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: https://www.sciencedirect.com/topics/engineering/nephelometric-turbidity-unit
Data Type: float
Missingness Set: NA
Minimum Value: 0
Maximum Value: NA
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Nuclisens automated magnetic bead extraction kit

(nucAuto). Nucleic acid extraction performed using the nuclisens automated magnetic bead extraction kit.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

nucleomag (ref. 744220.4) using kingfisher automated instrument

(nucKingfish). nucleomag (ref. 744220.4) using kingfisher automated instrument
Part Type: categories
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: procGrp
Class: mutation
Nomenclature: mutation
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Nuclisens manual magnetic bead extraction kit

(nucManu). Nucleic acid extraction performed using the nuclisens manual magnetic bead extraction kit.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Null

(null). A logical representation of a statement that is neither TRUE nor FALSE. Missing value indicator when the value is neither TRUE nor FALSE.
Part Type: missingness
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

ISO 3166-1 numeric country code

(numCode). The ISO 3166-1 numeric code, a three-digit country code which is identical to that developed and maintained by the United Nations Statistics Division, with the advantage of script (writing system) independence, and hence useful for people or systems using non-Latin scripts. Preprogrammed into dictionary tables, not editable by users.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 3
Maximum Length: 3
Part Status: active. First released: active. Last updated: 2.1.0.

Number of NTCs per Run

(numNTC). The number of no-template controls included in each PCR instrument run.
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: procGrp
Class: pcr
Nomenclature: pcr
Ontology Reference: NA
Category Set ID: NA
Unit Set: unitlessUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: integer
Missingness Set: genMissingnessSet
Minimum Value: 0
Maximum Value: NA
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

National Wastewater Surveillance System

(nwss). NWSS header
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

NWSS - notes

(nwssNotes). NWSS notes
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

NWSS - process

(nwssProcess). NWSS process
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Water

(nww). Non-wastewater, coming from any kind of water body
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

coronavirus OC43

(oc43). Measure of the amount of coronavirus OC43.
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: sarsCov2
Class: allele
Nomenclature: allele
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

oc43 spike target

(oc43Mat). Human coronavirus OC43 is used as the recovery efficiency control target.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Ocean, natural water body

(ocean). Ocean, natural water body
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Other Collection depreciated

(oColDep). Other type of collection method. Add description to collectionOther. Deprecated as of version 2, please avoid use. Specify in type, or contact the PHES-ODM research team to add your specific item via a github issue (https://github.com/Big-Life-Lab/PHES-ODM/issues), or at phesd_odm@ohri.ca
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: NA
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: depreciated. First released: depreciated. Last updated: 2.0.0.

SIL Open Font License 1.1

(ofl11). The licensing for the measure or data set is managed under the SIL Open Font License 1.1.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: https://choosealicense.com/licenses/ofl-1.1/
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Lab Analysis

(ola). Offline laboratory analysis.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Omicron BA.1

(omicr1). Omicron B.1.1.529
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: sarsCov2
Class: variant
Nomenclature: variant
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Omicron BA.2

(omicr2). Omicron BA.2
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: sarsCov2
Class: variant
Nomenclature: variant
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Omicron BA.2.75

(omicr275). Omicron BA.2.75
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: sarsCov2
Class: variant
Nomenclature: variant
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Omicron BA.4

(omicr4). Omicron BA.4
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: sarsCov2
Class: variant
Nomenclature: variant
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Omicron BA.5

(omicr5). Omicron BA.5
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: sarsCov2
Class: variant
Nomenclature: variant
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

SARS-CoV-2 Omicron Variant Group

(omicronGrp). A group of measures/methods related to the SARS-CoV-2 Omicron Variant.
Part Type: groups
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: omicronGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: http://purl.obolibrary.org/obo/NCIT_C169076
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Onset date

(onsDate). Earliest that symptoms were reported for this case. This data is often not known and reported. In lieu, episode is used.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: NA
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: depreciated. First released: depreciated. Last updated: 2.0.0.

Online Sensor

(onse). Online sensor An online sensor
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Ontology reference

(ontologyRef). Ontology reference for a part. This field contains a link to an existing ontology reference for the part. ODM content spans several existing ontologies. ODM does not strive to generate a new ontology, rather ODM seeks to harmonize and extend dictionaries for application in environmental and public health surveillance.
Part Type: partSupport
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 200
Part Status: active. First released: active. Last updated: 2.0.0.

Value out of range

(oor). Value is outside of the allowable range for quality control.
Part Type: qualityIndicators
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Open license not otherwise described

(open). The licensing for the measure or data set is managed under an open license not otherwise described.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Orthophosphates

(ophos). Ortho-phosphate concentration.
Part Type: measurements
Domain: che
Speciment ID: siSaSpecimenSet
Compartment Set: waterCompartmentSet
Group: waterQualityGrp
Class: standardConc
Nomenclature: standardConc
Ontology Reference: NA
Category Set ID: NA
Unit Set: stdConcentrationUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Organization table Shorthand

(or). The abbreviated short name used to reference the The table that contains information about a laboratory. table
Part Type: shortName
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.2.

Other residential building

(orb). Individual residential buildings or institutions not captured in other categories
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

OR Boolean aggregation

(orBoo). “OR” aggreation. If any value in the aggregation is “TRUE” then the OR aggregation is also “TRUE”. If all values in the aggregation is “FALSE” then the OR aggregation is also “FALSE”.
Part Type: aggregations
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

ORF1a sars-cov-2 gene target

(orf1a). ORF1a sars-cov-2 gene target
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: sarsCov2
Class: allele
Nomenclature: allele
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

ORF1ab sars-cov-2 gene target

(orf1ab). ORF1ab sars-cov-2 gene target
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: sarsCov2
Class: allele
Nomenclature: allele
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

ORF1b sars-cov-2 gene target

(orf1b). ORF1b sars-cov-2 gene target
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: sarsCov2
Class: allele
Nomenclature: allele
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Organism

(organism). Organism class Identify class = `organism` for when a part identifies an organism and partType = `groups`. Indivdual measures should be recorded with a class for the specific measure type. i.e. allele, variant, mutation, etc.
Part Type: classes
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Organization ID

(organizationID). A unique identifier for the organization to which the reporter is affiliated.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 100
Part Status: active. First released: active. Last updated: 2.0.0.

Organization table

(organizations). The table that contains information about a laboratory. adapt from verson 1 documentation
Part Type: tables
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: programDescr
Nomenclature: programDescr
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Organizations table column order

(organizationsOrder). Specifies the order of the columns in a Organizations table.
Part Type: tableSupport
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: integer
Missingness Set: NA
Minimum Value: 1
Maximum Value: NA
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Organziation table required headers

(organizationsRequired). Specifies the columns required in a Organizations table.
Part Type: tableSupport
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Organization level

(orgLevel). The geographic level of an organization. There are six levels based on International Standard Classification of Administrative Units (ISCU).
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: orgLevelSet
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: nrNAMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Organization level set

(orgLevelSet). Categories of organization levels.
Part Type: mmaSets
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 10
Part Status: active. First released: active. Last updated: 2.0.0.

Organization sector

(orgSector). The sector of an organization
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: orgSectorSet
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: nrNAMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Organization sector set

(orgSectorSet). Cateogries of organization sectors.
Part Type: mmaSets
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 10
Part Status: active. First released: active. Last updated: 2.0.0.

Organization Type

(orgType). Specifies the type or purpose of a given organization.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: orgTypeSet
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: nrNAMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Organization type set

(orgTypeSet). The set for storing organization types.
Part Type: mmaSets
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 10
Part Status: active. First released: active. Last updated: 2.0.0.

Sample origin

(origin). An attribute of a sample specifying the origin.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Sample Origin set

(originSet). The set for storing the valid categorical values of sample origin.
Part Type: mmaSets
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Orthopox Virus Group

(orthoGrp). A group of measures/methods related to orthopox viruses (excluding variolla viruses).
Part Type: groups
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: orthoGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Open Software License 3.0

(osl30). The licensing for the measure or data set is managed under the Open Software License 3.0.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: https://choosealicense.com/licenses/osl-3.0/
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Other Collection depreciated

(otco). Other type of collection method. Add description to collectionOther. Deprecated as of version 2, please avoid use. Specify in type, or contact the PHES-ODM research team to add your specific item via a github issue (https://github.com/Big-Life-Lab/PHES-ODM/issues), or at phesd_odm@ohri.ca
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: NA
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: depreciated. First released: depreciated. Last updated: 2.0.0.

Other aggregation scale

(othAgg). Specifies an aggregation scale that can’t be described as either “qualitative” or “quantitative”.
Part Type: aggregationScales
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Other

(other). Other Other category. A categorical response for several variables in version 1. Also accompanied by a free text field. Depreciated in version 2, with common text fields added as new categories in version 2.0.0
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: NA
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: depreciated. First released: depreciated. Last updated: 2.0.0.

Other aggregation set

(otherAggrSet). Aggregation set used for unitless measures.
Part Type: aggregationSets
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Other aggregation depricated

(otherDep). Other aggregation method. Add description to aggregationOther Deprecated as of version 2, please avoid use. Specify in type, or contact the PHES-ODM research team to add your specific item via a github issue (https://github.com/Big-Life-Lab/PHES-ODM/issues), or at phesd_odm@ohri.ca
Part Type: aggregations
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: depreciated. First released: depreciated. Last updated: 2.0.0.

Access to other prov depricated

(otherProvDep). If this is ‘no’, this data will not be available to other data providers not listed before. If missing, data will be available to other data providers not listed before
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: booleanSet
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: boolean
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 1
Part Status: depreciated. First released: depreciated. Last updated: 2.0.0.

Other report table set

(otherReportTableSet). Additional tables that form the full data model.
Part Type: dictSets
Domain: naDomain
Speciment ID: saSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Variants Other

(otherV). Used for reporting variants detected for which a specific measureID doesn’t already exist. The ODM team will periodically migrate collected responses in this category into set measureIDs. Please write in an official name for the new variant that was detected, and specify which nomenclature you’re using with the nomenclatureID.
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: sarsCov2
Class: variant
Nomenclature: variant
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Other Unit depricated

(otunDep). Other measurement of viral copies or wastewater treatment plant parameter. Add description to UnitOther. Deprecated as of version 2, please avoid use. Specify in type, or contact the PHES-ODM research team to add your specific item via a github issue (https://github.com/Big-Life-Lab/PHES-ODM/issues), or at phesd_odm@ohri.ca
Part Type: units
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: integer
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: depreciated. First released: depreciated. Last updated: 2.0.0.

Value is an outlier

(out). Value is an outlier and may be of questionable quality.
Part Type: qualityIndicators
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Outbreak

(outb). Measure to indicate outbreak status. Given that when outbreaks occur, full data on case counts may not be available or completely accurate, using this measure indicates that case counts may be approximate. The datetime for the measure helps indicate that start and end periods for an outbreak.
Part Type: measurements
Domain: bio
Speciment ID: poSpecimenSet
Compartment Set: humanCompartmentSet
Group: miscMeas
Class: outbreak
Nomenclature: outbreak
Ontology Reference: NA
Category Set ID: outbreakSet
Unit Set: unitlessUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Outbreak End

(outbEnd). Indicates an outbreak has ended.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Outbreak - on-going

(outbOngoing). Indicates an outbreak is on-going.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Outbreak class

(outbreak). Measures and methods relating to public health outbreaks.
Part Type: classes
Domain: bio
Speciment ID: poSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: outbreak
Nomenclature: outbreak
Ontology Reference: NA
Category Set ID: NA
Unit Set: unitlessUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Outbreak set

(outbreakSet). set for the valid values of the outbreak measure.
Part Type: mmaSets
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: outbreakSet
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Outbreak start

(outbStart). Indicates an outbreak began.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Delta Variant p100l mutation

(p100l). Delta Variant p100l mutation & gene target.
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: deltaGrp
Class: mutation
Nomenclature: mutation
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Omicron Variant p13l mutation

(p13L). Omicron Variant p13l mutation
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: omicronGrp
Class: mutation
Nomenclature: mutation
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Delta Variant p2046l mutation

(p2046l). Delta Variant p2046l mutation & gene target.
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: deltaGrp
Class: mutation
Nomenclature: mutation
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Delta Variant p2287s mutation

(p2287s). Delta Variant p2287s mutation & gene target.
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: deltaGrp
Class: mutation
Nomenclature: mutation
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Omicron Variant p3395h mutation

(p3395h). Omicron Variant p3395h mutation & gene target.
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: omicronGrp
Class: mutation
Nomenclature: mutation
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Delta Variant p681r

(p681r). Delta Variant p681r mutation & gene target.
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: deltaGrp
Class: mutation
Nomenclature: mutation
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Parts Look-up table Shorthand

(pa). The abbreviated short name used to reference the Look up table containing all parts in of the data model. table
Part Type: shortName
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.2.

polymerase activation

(pAct). Describes the polymerase activation cycle in a PCR process.
Part Type: categories
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Paired Layout

(pairLay). Specifies the paired layout for a sequencing method
Part Type: categories
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Pangolin nomenclature

(pangolin). Specifies variant or genetic nomenclature as set out by the Phylogenetic Assignment of Named Global Outbreak Lineages (Pangolin).
Part Type: nomenclatures
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Papilomavirus Group

(papilomavirusGrp). A group of measures/methods related to papilomaviruses. Used to describe the organism information for general measures.
Part Type: groups
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: papilomavirusGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Paraxanthine (PARA)

(para). A metabolite of the common central nervous system stimulant caffeine, measred levels of paraxanthine have been found to be less affected by the genetic heterogeneity and population structure than caffeine is, and it may serve as a useful population biomarker in wastewater.
Part Type: measurements
Domain: che
Speciment ID: siSaSpecimenSet
Compartment Set: waterCompartmentSet
Group: procGrp
Class: standardConc
Nomenclature: standardConc
Ontology Reference: NA
Category Set ID: NA
Unit Set: stdConcentrationUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Parainfluenza Group

(parafluGrp). A group of measures/methods related to parainfluenza viruses. Used to describe the organism information for general measures.
Part Type: groups
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: parafluGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Parapoxvirus Orf Virus Spike Target

(parapoxSpike). parapoxvirus // Orf virus is used as the recovery efficiency control target.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Parent dataset ID

(parDatasetID). The datasetID that is a parent to another datasetID.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Parent sample ID

(parent). If this sample has been pooled into one big sample for analysis this indicates the sample of the larger pooled sample.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: depreciated. First released: depreciated. Last updated: 2.0.0.

Part description

(partDesc). The description of the part. Provides description of the part, used for tranlsation.
Part Type: partSupport
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Part identifier

(partID). The unique identify of any entity within the dictionary. Every entity in the ODM has a partID. The partID must be unique with no duplcates. partIDs are short. partIDs that are constructed by different part attributes can be up 28 characters (check max), but each part attibute should be 1 to 5 characters. partIDs are machine readible, but a knowledgable user can understand what they represent. partID are used, for example, as a header in an Excel input table. Numbers are allowed but there no other special characters other than ``. `` is a reserved character that is used to generate a partID using a compoent or table attributes. A partID for a subComponent is automatically generated using attributes of a component. For example, the partID for the compoent `SARS-CoV-2` is `covid`. `Covid` can have many subComponents including different groups (Covid-19-al, Covid-19-va, ovid-pr (allele, variant or protein) or units and aggregatrions (i.e. covid-al-N1-mean-cpl representing ovid allele N1, mean observation of viral copies per litre of effluent). A similar approach to naming subComponent is use for naming parts in a reprotTable.
Part Type: partSupport
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 28
Part Status: active. First released: active. Last updated: 2.0.0.

Part instruction

(partInstr). Additional notes and instructions on how a part is used and/or defined.
Part Type: partSupport
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 200
Part Status: active. First released: active. Last updated: 2.0.0.

Parts Look-up table

(parts). Look up table containing all parts in of the data model. Contains all parts, including self-referential parts.
Part Type: tables
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: lookup
Nomenclature: lookup
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Parts table column order

(partsOrder). Order of headers in the Parts table.
Part Type: tableSupport
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Parts table required headers

(partsRequired). Required headers in the Parts table.
Part Type: tableSupport
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Part Support

(partSupport). Parts designed to support the metadata definition of other parts in the parts table.
Part Type: partType
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Part types

(partType). Part types describe the purpose or use of the part. Enivornment data has three main part types: measure (i.e. covN1 viral measures, wasteawater flow rate, temperature), method (e.g. how the measure was taken), and attribute (such as a site name). See description of each of the part types within categorySetID = partTypeCatSets.
Part Type: partType
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 15
Part Status: active. First released: active. Last updated: 2.0.0.

Part type input (wide table)

(partTypeInput). The partID for the part type being used in a wide name.
Part Type: attributes
Domain: naDomain
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Part type name (wide table)

(partTypeName). The part type being used in a wide name.
Part Type: attributes
Domain: naDomain
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Passive Sample - General

(passiveGen). Used to specify a passive sampling method not otherwise specified was used to collect the sample.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Pasteurized sample

(pasteur). Binary indicator for whether a sample was pasteurized as part of its processing.
Part Type: methods
Domain: bio
Speciment ID: siSaSpecimenSet
Compartment Set: anyCompartmentSet
Group: procGrp
Class: standardConc
Nomenclature: standardConc
Ontology Reference: NA
Category Set ID: booleanSet
Unit Set: unitlessUnitSet
Aggregation Scale: qualAggScale
Quality Set: NA
Reference Link: NA
Data Type: boolean
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Primary Clarifier Effluent depreciated

(pceDep). Effluent obtained after primary clarifiers. Deprecated in version 2, please do not use. Duplicate of the sampleMat categories - refer to those.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: waterCompartmentSet
Group: colGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: NA
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: depreciated. First released: depreciated. Last updated: 2.0.0.

Postal or Zip Code

(pCode). The zip code or postal code for a given address, specifying a specifc geographic area.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

qPCR Class

(pcr). Measures and methods relating to qPCR.
Part Type: classes
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: pcr
Nomenclature: pcr
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

PCR Action/Activity

(pcrAct). Describes a given PCR cycle for delineating more method information.
Part Type: methods
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: measGrp
Class: pcr
Nomenclature: pcr
Ontology Reference: NA
Category Set ID: pcrActSet
Unit Set: unitlessUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

PCR action/activity set

(pcrActSet). The set capturing containing all of the valid methods for the PCR activity cycles.
Part Type: mmaSets
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: pcrActSet
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 50
Part Status: active. First released: active. Last updated: 2.2.0.

PCR method

(pcrmeth). Description of the PCR method. Description of the PCR method used
Part Type: methods
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: measGrp
Class: pcr
Nomenclature: pcr
Ontology Reference: NA
Category Set ID: pcrSet
Unit Set: unitlessUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 100
Part Status: active. First released: active. Last updated: 2.0.0.

PCR quality set

(pcrQualitySet). Quality set for PCR measures.
Part Type: qualityIndSets
Domain: naDomain
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

PCR sequencingsSelection method

(pcrSeq). Specifies the PCR selection method for sequencing, ie. that a pre-determined primer was used. Primer should be specified if this is selected.
Part Type: methods
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

PCR Method set

(pcrSet). The set capturing containing all of the valid methods for the PCR methodID.
Part Type: mmaSets
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: pcrSet
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Primary Clarifier Sludge depreciated

(pcs). Sludge produced by primary clarifiers.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: waterCompartmentSet
Group: colGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: NA
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: depreciated. First released: depreciated. Last updated: 2.0.0.

Primary clarifier effluent

(pEfflu). Effluent obtained after primary clarifiers
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: waterCompartmentSet
Group: colGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Polyethyleneglycol (PEG) precipitation

(peg). Peg precipitation
Part Type: categories
Domain: che
Speciment ID: naSpecimenSet
Compartment Set: waterCompartmentSet
Group: procGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Percent

(perc). Percentage.
Part Type: units
Domain: allDo
Speciment ID: anySpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: float
Missingness Set: NA
Minimum Value: 0
Maximum Value: NA
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Percent recovery

(percRec). Percent of the surrogate recovery for a recovery efficiency control assay. Use this for reporting the results of any recovery control assay.
Part Type: measurements
Domain: naDomain
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: integer
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 100
Part Status: active. First released: active. Last updated: 2.0.0.

pH

(ph). pH measurement
Part Type: measurements
Domain: phy
Speciment ID: siSaSpecimenSet
Compartment Set: anyCompartmentSet
Group: waterQualityGrp
Class: pHClass
Nomenclature: pHClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: unitlessUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: float
Missingness Set: genMissingnessSet
Minimum Value: 1
Maximum Value: 14
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Access to phac

(phac). If this is ‘no’, the data will not be available to employees of the Public Health Agency of Canada - PHAC. If missing, data will be available to employees of the Public Health Agency of Canada - PHAC.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: booleanSet
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: boolean
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 1
Part Status: depreciated. First released: depreciated. Last updated: 2.0.0.

PHAGE

(phage). PHAGE header
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Bacteriophage Group

(phageGrp). A group of measures/methods related to bacteriophages. Used to describe the organism information for general measures.
Part Type: groups
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: phageGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

PHAGE - notes

(phageNotes). PHAGE notes
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

pH class

(pHClass). Measures and methods relating to pH.
Part Type: classes
Domain: che
Speciment ID: siSaSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: pHClass
Nomenclature: pHClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: unitlessUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Phenol chloroform

(phenCl). Nucleic acid extraction performed using phenol chloroform.
Part Type: categories
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: procGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Pseudomonas virus phi6

(phi6). Measure of the amount of pseudomonas virus phi6.
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: phageGrp
Class: allele
Nomenclature: allele
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

phi6 spike target

(phi6Mat). Pseudomonas virus phi6is used as the recovery efficiency control target.
Part Type: categories
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: procGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Country national phone prefix

(phone). International dialing code for the country. Preprogrammed into dictionary tables, not editable by users.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 75
Part Status: active. First released: active. Last updated: 2.1.0.

Total phosphorous

(phos). Total phosphorous
Part Type: measurements
Domain: phy
Speciment ID: siSaSpecimenSet
Compartment Set: waterCompartmentSet
Group: miscMeas
Class: standardConc
Nomenclature: standardConc
Ontology Reference: NA
Category Set ID: NA
Unit Set: stdConcentrationUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Total Phosphates

(phostot). Total phosphates
Part Type: measurements
Domain: phy
Speciment ID: siSaSpecimenSet
Compartment Set: waterCompartmentSet
Group: miscMeas
Class: standardConc
Nomenclature: standardConc
Ontology Reference: NA
Category Set ID: NA
Unit Set: stdConcentrationUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

PHRED quality score

(phred). PHRED Quality Score For Sequencing
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: procGrp
Class: sequence
Nomenclature: sequence
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Physical property

(phy). A physical property or object not characterized by life or chemistry.
Part Type: domains
Domain: phy
Speciment ID: anySpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Physical class

(physical). Measures and methods related to generic physical properties.
Part Type: classes
Domain: phy
Speciment ID: siSaSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: physical
Nomenclature: physical
Ontology Reference: NA
Category Set ID: NA
Unit Set: volumeUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Primary key

(pK). Primary key for a table. All report tables have a primary key. Each row in a report table has unique identifier recorded in the primary key.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Plasmodium

(plasmodium). Plasmodium
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: malariaGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

PMMoV- and flow-normalized mean

(pmFloMean). Mean measure normalized to amount of PMMoV and wastewater flow. Mostly used for reporting specific alleles (N1, N2, E, etc.)
Part Type: aggregations
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

PMMoV Group

(pmmovGrp). A group of measures/methods related to the Pepper Mild Mottle Virus (PMMoV). Used to describe the organism information for general measures.
Part Type: groups
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: pmmovGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

PMMoV-normalized mean

(pmmovNorm). Mean measure normalized to amount of PMMoV. Mostly used for reporting specific alleles (N1, N2, E, etc.)
Part Type: aggregations
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

PMMV forward primer (ABI)

(pmmvABIFor). PMMV forward primer (ABI)
Part Type: categories
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: pmmovGrp
Class: pcr
Nomenclature: pcr
Ontology Reference: NA
Category Set ID: NA
Unit Set: unitlessUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

PMMV probe (ABI)

(pmmvABIProbe). PMMV probe (ABI)
Part Type: categories
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: pmmovGrp
Class: pcr
Nomenclature: pcr
Ontology Reference: NA
Category Set ID: NA
Unit Set: unitlessUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

PMMV reverse primer (ABI)

(pmmvABIRev). PMMV reverse primer (ABI)
Part Type: categories
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: pmmovGrp
Class: pcr
Nomenclature: pcr
Ontology Reference: NA
Category Set ID: NA
Unit Set: unitlessUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Polygon table Shorthand

(po). The abbreviated short name used to reference the The table that contains information about the geometry of a geographic area. table
Part Type: shortName
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.2.

Post-Grit depreciated

(pogr). Raw wastewater after a treatment plant’s headworks.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: waterCompartmentSet
Group: colGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: NA
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: depreciated. First released: depreciated. Last updated: 2.0.0.

Policy and political sector or organization

(policy). Describes organizations whose core focus is on policy or political activity.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Poliovirus Group

(polioGrp). A group of measures/methods related to polioviruses. Used to describe the organism information for general measures.
Part Type: groups
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: polioGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Polygon ID

(polygonID). Unique identifier for the polygon. A polygon is a geographic are representing the capment area of an environmental sample.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 10
Part Status: active. First released: active. Last updated: 2.0.0.

Polygon table

(polygons). The table that contains information about the geometry of a geographic area.
Part Type: tables
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: programDescr
Nomenclature: programDescr
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Polygons table column order

(polygonsOrder). Specifies the order of the columns in a Polygons table.
Part Type: tableSupport
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: integer
Missingness Set: NA
Minimum Value: 1
Maximum Value: NA
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Polygon table required headers

(polygonsRequired). Specifies the columns required in a Polygons table.
Part Type: tableSupport
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Polygon Population

(polyPop). An attribute of a polygon, which specifies the population of that polygon. A rough estimate of the number of human residents.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: integer
Missingness Set: genMissingnessSet
Minimum Value: 0
Maximum Value: NA
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Pooled

(pooled). Is this a pooled sample, and therefore composed of multiple child samples obtained at different sites
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: booleanSet
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: boolean
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Population

(pop). An measure or observation for a geographic area or population. Examples include human compartment measures such as case numbers, hospitalization rates for diseases or surface or air compartment measures such as snow coverage or ambient temperature.
Part Type: specimens
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Type of date for case reporting depreciated

(popDateTypeDep). Type of date used for confirmed cases. Typically, report or episode are reported. Onset and test date is not usually reported within aggregate data.
Part Type: attributes
Domain: bio
Speciment ID: poSpecimenSet
Compartment Set: humanCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: methodConcSet
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: depreciated. First released: depreciated. Last updated: 2.0.0.

Population equivalents

(popEq). A unit for measuring of design capacity for wastewater treatment plants, represented as the approximate amount of water a signle person would use.
Part Type: units
Domain: phy
Speciment ID: siSpecimenSet
Compartment Set: waterCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: float
Missingness Set: NA
Minimum Value: 0
Maximum Value: NA
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Population group

(popGrp). A group of measures/methods related to population-level factors. Examples might be case numbers, hospitalization rates, etc.
Part Type: groups
Domain: allDo
Speciment ID: poSpecimenSet
Compartment Set: anyCompartmentSet
Group: popGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Population Served

(popServ). An attribute of a site, which specifies the population of/population served by a given site.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Population unit set

(populationUnitSet). Unit set for hospital-related measurements.
Part Type: unitSets
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: humanCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: populationUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Port or Harbour

(port). A harbor is any sheltered body of water where boats or ships may moor or anchor. A port is an installation that has been built around a harbor with facilities for loading and unloading such vessels.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: anyCompartmentSet
Group: colGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.3.

Population or sample set

(poSaSpecimenSet). A specimen set that inculdes population or sample specimen.
Part Type: specimenSets
Domain: naDomain
Speciment ID: poSaSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Population specimen set

(poSpecimenSet). A specimen set that inculdes only a population specimen.
Part Type: specimenSets
Domain: naDomain
Speciment ID: poSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

PostgreSQL License

(postgreSQL). The licensing for the measure or data set is managed under the PostgreSQL License.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: https://choosealicense.com/licenses/postgresql/
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Percent positive

(pp). Percent positive of sample measures. Can use for Moore swabs, etc.
Part Type: units
Domain: bio
Speciment ID: siSaSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: float
Missingness Set: NA
Minimum Value: 0
Maximum Value: 100
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

parts per million

(ppm). Parts per million.
Part Type: units
Domain: phy
Speciment ID: siSaSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: float
Missingness Set: NA
Minimum Value: 0
Maximum Value: NA
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

PMMoV-CP

(ppmv). Pepper mild mottle virus capsid protein gene region
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: pmmovGrp
Class: allele
Nomenclature: allele
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Percent positivity rate

(pprt). Percent positivity rate of tests conducted within a day in a given region.
Part Type: units
Domain: bio
Speciment ID: poSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: float
Missingness Set: NA
Minimum Value: 0
Maximum Value: NA
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Percent primary sludge

(pps). Percentage of total solids, for primary sludge.
Part Type: units
Domain: phy
Speciment ID: siSaSpecimenSet
Compartment Set: waterCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: float
Missingness Set: NA
Minimum Value: 0
Maximum Value: 100
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Protocol relationships table Shorthand

(pr). The abbreviated short name used to reference the The table that contains the organizational information and details (such as order) about a given protocol, recorded as a series of protocol steps (protocolSteps). table
Part Type: shortName
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.2.

Precipitation class

(precipitation). Measures and methods related to precipitation.
Part Type: classes
Domain: phy
Speciment ID: siSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: precipitation
Nomenclature: precipitation
Ontology Reference: NA
Category Set ID: NA
Unit Set: precipitationUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Precipitation unit set

(precipitationUnitSet). Unit set for percipitation measurements.
Part Type: unitSets
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: precipitationUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Storage temperature prior to concentration

(preConcTemp). The temperature at which a sample was stored between collection and concentration.
Part Type: measurements
Domain: phy
Speciment ID: saSpecimenSet
Compartment Set: waterCompartmentSet
Group: procGrp
Class: standardConc
Nomenclature: standardConc
Ontology Reference: NA
Category Set ID: NA
Unit Set: temperatureUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: integer
Missingness Set: genMissingnessSet
Minimum Value: -100
Maximum Value: 100
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Storage time prior to concentration

(preConcTime). Length of time for which a sample is stored between collection and concentration.
Part Type: measurements
Domain: phy
Speciment ID: saSpecimenSet
Compartment Set: waterCompartmentSet
Group: procGrp
Class: standardConc
Nomenclature: standardConc
Ontology Reference: NA
Category Set ID: NA
Unit Set: timeUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: integer
Missingness Set: genMissingnessSet
Minimum Value: 0
Maximum Value: NA
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Storage temperature prior to extraction

(preExtractTemp). The temperature at which a sample was stored between concentration and extraction.
Part Type: measurements
Domain: phy
Speciment ID: saSpecimenSet
Compartment Set: waterCompartmentSet
Group: procGrp
Class: standardConc
Nomenclature: standardConc
Ontology Reference: NA
Category Set ID: NA
Unit Set: temperatureUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: integer
Missingness Set: genMissingnessSet
Minimum Value: -100
Maximum Value: 100
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Storage time prior to extraction

(preExtractTime). Length of time for which a sample is stored between concentration and extraction.
Part Type: measurements
Domain: phy
Speciment ID: saSpecimenSet
Compartment Set: waterCompartmentSet
Group: procGrp
Class: standardConc
Nomenclature: standardConc
Ontology Reference: NA
Category Set ID: NA
Unit Set: timeUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: integer
Missingness Set: genMissingnessSet
Minimum Value: 0
Maximum Value: NA
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Pretreatment

(pretreat). Was the sample chemically treated in anyway with the addition of stabilizers or other Pretrement method can be describe using a method. See methodID.
Part Type: measurements
Domain: allDo
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: procGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: booleanSet
Unit Set: unitlessUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 1
Part Status: active. First released: active. Last updated: 2.0.0.

Genetic primer

(primer). Method ID used for indicating the primer used for a PCR or sequencing assay.
Part Type: methods
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: measGrp
Class: sequence
Nomenclature: sequence
Ontology Reference: NA
Category Set ID: primerSet
Unit Set: unitlessUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Genetic primer set

(primerSet). The set for genetic primers used in sequencing or PCR assays.
Part Type: mmaSets
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: primerSet
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Private sector

(priv). The category of organization type used for private sector or non-profit groups that are not otherwise captured by the academic category.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 10
Part Status: active. First released: active. Last updated: 2.0.0.

Private data - not for disemination

(private). The measure or data set is private data - not for disemination.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Protocols table Shorthand

(pro). The abbreviated short name used to reference the The table for protocols. table
Part Type: shortName
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.2.

Processing group

(procGrp). A group of measures/methods related to processing samples for analysis.
Part Type: groups
Domain: allDo
Speciment ID: siSaSpecimenSet
Compartment Set: anyCompartmentSet
Group: procGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Program decription tables

(programDescr). Tables used to describe surveillance and testing programs. Program description tables record metadata on the organizations, locations, and protocols. Information include the name, location, and other contact information.These tables are usually completed once and they are updated only when contact information changes.
Part Type: classes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: programDescr
Nomenclature: programDescr
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

promega automated tna kit

(promAuto). Nucleic acid extraction performed using the promega automated tna kit.
Part Type: categories
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: procGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

promega wastewater large volume tna capture kit

(promegaLVTNA). promega wastewater large volume tna capture kit
Part Type: categories
Domain: phy
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: procGrp
Class: standardConc
Nomenclature: standardConc
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

promega ht tna kit

(promHt). Nucleic acid extraction performed using the promega ht tna kit.
Part Type: categories
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: procGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

promega manual tna kit

(promManu). Nucleic acid extraction performed using the promega manual tna kit.
Part Type: categories
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: procGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

promega wastewater large volume tna capture kit

(promWW). Nucleic acid extraction performed using the promega wastewater large volume tna capture kit.
Part Type: categories
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: procGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Proportion of total

(prop). Proportion as a precent of total.
Part Type: units
Domain: naDomain
Speciment ID: anySpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: float
Missingness Set: NA
Minimum Value: 0
Maximum Value: 100
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Proportion of variant in sample

(propV). Proportion of a variant as percent of total variants.
Part Type: units
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: float
Missingness Set: NA
Minimum Value: 0
Maximum Value: 100
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Proteins class

(protein). Measures and methods related to proteins.
Part Type: classes
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: protein
Nomenclature: protein
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Protocol ID

(protocolID). A unique identifier for a given protocol.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Protocol ID container

(protocolIDContainer). Unique identifier for the protocol and the steps and other protocols that make it up. Protocol ID Container in popuated by a protocolID (partID = protocolID)
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 15
Part Status: active. First released: active. Last updated: 2.0.0.

Protocol ID object

(protocolIDObj). The object of the relationship between one protocol and another protocol or step, within a given protocol ID container. Populate this field using Protocol ID (partID = protocolID). Together with `protocolIDSub` or `stepIDSub` and `relationshipID`, the protocol relationship is defined as: [protocolIDSubject or stepIDSubject] [relationshipID] [protocolIDObject or stepIDObject]. Ex: stepIDSubject precedes protocolIDObject.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Protocol ID subject

(protocolIDSub). The subject of the relationship between one protocol and another protocol or step, within a given protocol ID container. Populate this field using Protocol ID (partID = protocolID). Together with `protocolIDObj` or `stepIDObj` and `relationshipID` the row of `protocolRelationships` should say: [protocolIDSubject or stepIDSubject] [relationshipID] [protocolIDObject or stepIDObject]. Ex: stepIDSubject precedes protocolIDObject.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Protocol relationships table

(protocolRelationships). The table that contains the organizational information and details (such as order) about a given protocol, recorded as a series of protocol steps (protocolSteps). Protocols are a group of related protocol steps. For example a protocol step can describe a sample concentration, extraction, inhibition or a measurement. Protocols can include both methodID (a proceedure) and measureIDs (a measure). An example of a method is centrifugation; where the centriguation rotation speed is described as a measure.
Part Type: tables
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: programDescr
Nomenclature: programDescr
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Synthetic ID for the protocolRelationships table

(protocolRelationshipsID). A unique, autoincremental ID generated to produce a unique identifier and primary key for each row of the protocolRelationships table.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 50
Part Status: active. First released: active. Last updated: 2.2.0.

Protocol relationships table column order

(protocolRelationshipsOrder). Specifies the order of the columns in the Protocol Organization table.
Part Type: tableSupport
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: integer
Missingness Set: NA
Minimum Value: 1
Maximum Value: NA
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Protocol Relationship table required headers

(protocolRelationshipsRequired). Specifies the columns required in the Protocol Organization table.
Part Type: tableSupport
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Protocol Relationships set

(protocolRelSet). set for valid values of relationshipID in the protocolRelationships table. Use only for protocolRelationships table relationshipID.
Part Type: mmaSets
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: protocolRelSet
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Protocols table

(protocols). The table for protocols.
Part Type: tables
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: programDescr
Nomenclature: programDescr
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Protocols table column order

(protocolsOrder). Specifies the order of the columns in the Protocols table.
Part Type: tableSupport
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: integer
Missingness Set: NA
Minimum Value: 1
Maximum Value: NA
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Protocols table required headers

(protocolsRequired). Specifies the columns required in the Protocols table.
Part Type: tableSupport
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Protocol steps table

(protocolSteps). The table for collecting metadata on individual steps in a protocol, methodological process, or assay.
Part Type: tables
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: programDescr
Nomenclature: programDescr
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Protocol steps table column order

(protocolStepsOrder). Specifies the order of the columns in a Protocol Steps table.
Part Type: tableSupport
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: integer
Missingness Set: NA
Minimum Value: 1
Maximum Value: NA
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Protocol steps table required headers

(protocolStepsRequired). Specifies the columns required in a Protocol Steps table.
Part Type: tableSupport
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Protocol table set

(protocolTableSet). Tables holding information on the methods used for sample collection or measurement.
Part Type: dictSets
Domain: naDomain
Speciment ID: saSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Protocol version

(protocolVersion). Specifies the version of a method set. Version of the method set. Semantic versioning is recommended.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: integer
Missingness Set: genMissingnessSet
Minimum Value: 1
Maximum Value: NA
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Access to prov ha

(provHA). If this is ‘no’, this data will not be available to provincial health authorities. If missing, data will be available to provincial health authorities.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: booleanSet
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: boolean
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 1
Part Status: depreciated. First released: depreciated. Last updated: 2.0.0.

Provisional report

(provisional). A provisional or interm report. Use for measurement that are not yet finalized. Typically this purpose is not publicly reported.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Protocol steps table Shorthand

(ps). The abbreviated short name used to reference the The table for collecting metadata on individual steps in a protocol, methodological process, or assay. table
Part Type: shortName
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.2.

Pseudomonas

(pseudomonas). Pseudomonas
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: pseudomonasGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Pseudomonas Group

(pseudomonasGrp). A group of measures/methods related to pseudomonas bacteria. Used to describe the organism information for general measures.
Part Type: groups
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: pseudomonasGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Primary clarifier sludge

(pSludge). Sludge produced by primary clarifiers
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: waterCompartmentSet
Group: colGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Pumping station

(pStat). Pumping station
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: waterCompartmentSet
Group: colGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Post-grit

(pstGrit). Raw wastewater after a treatment plant’s headworks (post grit or removal of large solids at a treatment plant but priort to a primary clarifier)
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: waterCompartmentSet
Group: colGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Pretreatment description - depreciated

(ptDescDep). If preTreatment then describe the treatment that was performed. Deprecated in version 2, please do not use. Use pretreatment methodID and specify further in summary and/or notes, if necessary.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: procGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 255
Part Status: depreciated. First released: depreciated. Last updated: 2.0.0.

Number of positive tests

(ptot). Number of positive tests conducted within a day in a given region.
Part Type: units
Domain: bio
Speciment ID: poSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: integer
Missingness Set: NA
Minimum Value: 0
Maximum Value: NA
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Public health agency

(pubHealth). Public health agency.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Access to public

(public). If this is ‘no’, this data will not be available to the public. If missing, data will be available to the public.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: booleanSet
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: boolean
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 1
Part Status: depreciated. First released: depreciated. Last updated: 2.0.0.

Puro virus

(puro). Measure of the amount of puro virus.
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: lentiGrp
Class: allele
Nomenclature: allele
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Puro virus spike target

(puroMat). Puro Virus is used as the recovery efficiency control target.
Part Type: categories
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: procGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Purpose

(purpose). The reason the measure or sample was taken. See allowed categories: report, quality control, validation study, test
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: purposeSet
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Purpose set

(purposeSet). Purpose set for a sample or measure.
Part Type: mmaSets
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: purposeSet
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Poliovirus type 2

(pv2). Poliovirus type 2
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: polioGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

q19e omicron-variant gene target

(q19e). q19e omicron-variant gene target
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: sarsCov2
Class: mutation
Nomenclature: mutation
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

q493r omicron-variant gene target

(q493r). q493r omicron-variant gene target
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: sarsCov2
Class: mutation
Nomenclature: mutation
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

q498r omicron-variant gene target

(q498r). q498r omicron-variant gene target
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: sarsCov2
Class: mutation
Nomenclature: mutation
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

q954h omicron-variant gene target

(q954h). q954h omicron-variant gene target
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: sarsCov2
Class: mutation
Nomenclature: mutation
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Quaility assurance method

(qaqc). Quality assurance and quality control method. Description of the quality control steps taken
Part Type: methods
Domain: allDo
Speciment ID: anySpecimenSet
Compartment Set: anyCompartmentSet
Group: procGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 100
Part Status: depreciated. First released: depreciated. Last updated: 2.0.0.

Quality concerns

(qf1). A flag to indicate there is a quality concern, not otherwise sepcified.
Part Type: qualityIndicators
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

qiagen allprep dna/rna kit

(qgDNARNA). Nucleic acid extraction performed using the qiagen allprep dna/rna kit.
Part Type: categories
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: procGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

qiagen digital PCR

(qgDpcr). Describes a PCR analysis done using Qiagen’s digital PCR technology.
Part Type: categories
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

qiagen ez1 virus mini kit v2.0

(qgEz1). Nucleic acid extraction performed using the qiagen ez1 virus mini kit v2.0.
Part Type: categories
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: procGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

qiagen allprep powerfecal dna/rna kit

(qgPwrFecal). Nucleic acid extraction performed using the qiagen allprep powerfecal dna/rna kit.
Part Type: categories
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: procGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

qiagen allprep powerviral dna/rna kit

(qgPwrViral). Nucleic acid extraction performed using the qiagen allprep powerviral dna/rna kit.
Part Type: categories
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: procGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

qiagen powerwater kit

(qgPwrWtr). Nucleic acid extraction performed using the qiagen powerwater kit.
Part Type: categories
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: procGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

qiagen qiaamp buffers with epoch columns

(qgQiAmp). Nucleic acid extraction performed using the qiagen qiaamp buffers with epoch columns.
Part Type: categories
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: procGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

qiagen rneasy kit

(qgRneasy). Nucleic acid extraction performed using the qiagen rneasy kit.
Part Type: categories
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: procGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

qiagen rneasy powermicrobiome kit

(qgRneasyPwr). Nucleic acid extraction performed using the qiagen rneasy powermicrobiome kit.
Part Type: categories
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: procGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

qiagen allprep dna/rna kit

(qiAllprep). qiagen allprep dna/rna kit
Part Type: categories
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: procGrp
Class: mutation
Nomenclature: mutation
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

qiagen qiaamp dsp viral rna mini kit

(qiampDSP). qiagen qiaamp dsp viral rna mini kit
Part Type: categories
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: procGrp
Class: mutation
Nomenclature: mutation
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Quantitative PCR

(qpcr). Real-time PCR, also called ‘quantAggScale’ PCR
Part Type: categories
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Quality reports table Shorthand

(qr). The abbreviated short name used to reference the The table for recording the various quality metrics and indicators for samples and measures. table
Part Type: shortName
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.2.

Qualitative

(qualAggScale). The qualitative aggregation scale.
Part Type: aggregationScales
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: qualAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Quality control

(qualityControl). A measure or sample taken for the purpose of quality control. Measures with this category are take to assess quality control.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Quality flag

(qualityFlag). A field for reporting any quality concerns - of lack thereof - for a sample or measure. Types of quality flag vary on context; please see the qulaityFlagSet to be confirm.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Quality indicators

(qualityIndicators). A measure of the quality of a reported value or sample. Only used for the dictionary entries of parts.
Part Type: partType
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 15
Part Status: active. First released: active. Last updated: 2.0.0.

Quality Indicator Set Header

(qualityIndSet). The quality set that corresponds to a given part. Only applicable for samples and measures.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Quality indicator sets

(qualityIndSets). Sets of quality indicators or measures. For example, PCR have a quality measure set.
Part Type: partType
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 15
Part Status: active. First released: active. Last updated: 2.0.0.

Quality report ID

(qualityReportID). A unique identifier for a given quality report.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Quality reports table

(qualityReports). The table for recording the various quality metrics and indicators for samples and measures.
Part Type: tables
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: results
Nomenclature: results
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Quality rerpots table column order

(qualityReportsOrder). Specifies the order of the columns in the Quality Reports table.
Part Type: tableSupport
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: integer
Missingness Set: NA
Minimum Value: 1
Maximum Value: NA
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Quality report table required headers

(qualityReportsRequired). Specifies the columns required in the Quality Reports table.
Part Type: tableSupport
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Quantitative

(quantAggScale). The “quantAggScale” aggregation scale.
Part Type: aggregationScales
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

R squared

(r2). R-squared value of the calibration curve. Used for storing calibration curve information, potentially also applicable for other curve types.
Part Type: units
Domain: allDo
Speciment ID: siSaSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: standardCurve
Nomenclature: standardCurve
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: float
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

r203m delta-variant gene target

(r203m). r203m delta-variant gene target
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: sarsCov2
Class: mutation
Nomenclature: mutation
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

R346T Mutation

(r346t). The FLiRT/SLip variant mutation R346T.
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: flirtSLipGrp
Class: mutation
Nomenclature: mutation
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Raindance digital PCR

(rainDpcr). Describes a PCR analysis done using Raindance’s digital PCR technology.
Part Type: categories
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Rainy

(rainy). Qualitative category for the weather measure, specifying a rainy day.
Part Type: categories
Domain: phy
Speciment ID: siSpecimenSet
Compartment Set: anyCompartmentSet
Group: siteFeat
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Random sequencing selection method

(ranSeq). Specifies the random selection method for sequencing No primer set should be used if this is selected.
Part Type: categories
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Ratio

(ratio). Ratio (unitless) Report as a real number or fration. i.e 10:2 ratio is reported as 5. The specifics of the ratio (the numerator and the demoninator) are described in the measure.
Part Type: units
Domain: naDomain
Speciment ID: anySpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: float
Missingness Set: NA
Minimum Value: 0
Maximum Value: NA
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Raw wastewater

(raws). Raw wastes water sample
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: waterCompartmentSet
Group: procGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

IP2 rdrp sars-cov-2 gene target

(rdrpIP2). IP2 rdrp sars-cov-2 gene target
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: sarsCov2
Class: mutation
Nomenclature: mutation
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

IP4 rdrp sars-cov-2 gene target

(rdrpIP4). IP4 rdrp sars-cov-2 gene target
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: sarsCov2
Class: mutation
Nomenclature: mutation
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Date sample recieved

(recDate). The date the sample was received at the laboratory for analysis.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: datetime
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Recovered patients

(recov). Units for describing a population measure of patients who have recovered from a given disease. Unit for a population or disease measure to explain population-level clinical effects.
Part Type: units
Domain: bio
Speciment ID: poSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: integer
Missingness Set: NA
Minimum Value: 0
Maximum Value: NA
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Regular

(regular). A measure or sample taken for surveillance or epidemiology. A ‘regular’ measure is the default. Missing data will be recoded to this purpose.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Regular reports table set

(regularReportTableSet). Tables used for daily reporting of new measurements and information on sample collection.
Part Type: dictSets
Domain: naDomain
Speciment ID: saSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Relationship between entities

(relationshipID). Attribute for specifying the relationship between a sample subject and object. Together with `sampleIDSubject` and `sampleRelID`, a row of the `sampleRelationships` should say: [sampleIDSubject] is a [sampleID] of [sampleIDObject]
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: relSet
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Relative humidity

(relHum). The unit of relative humidity, or the air-water mixture. The ratio of the partial pressure of water vapor in the mixture to the equilibrium vapor pressure of water over a flat surface. of pure water at a given temperature.
Part Type: measurements
Domain: phy
Speciment ID: siSpecimenSet
Compartment Set: anyCompartmentSet
Group: siteFeat
Class: humid
Nomenclature: humid
Ontology Reference: NA
Category Set ID: NA
Unit Set: relHumidUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Relative humidity unit set

(relHumidUnitSet). Unit set for relative humidity measurements.
Part Type: unitSets
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: relHumidUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

General Relationship Set

(relSet). set for valid values of relationshipID across all fields and tables.
Part Type: mmaSets
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: relSet
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.3.

Representative grab sample

(repGrab). A single large representative grab sample. Deprecated in version 2, please do not use.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: waterCompartmentSet
Group: colGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: NA
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: depreciated. First released: depreciated. Last updated: 2.0.0.

Replicate Type set

(replicateSet). The set for storing valid categorical values of replicate type.
Part Type: mmaSets
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: replicateSet
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

replicate number

(repNum). The replicate number for a Ct or Cq value - used for specifying out a protocol standard curve. Only applies and used for aggregated standard curves, or curves that are used across multiple plates. Otherwise, these details can be captured in a measure report and specified by measure index.
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: procGrp
Class: standardCurve
Nomenclature: standardCurve
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: float
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Primary reporting authority ID

(repOrg1). The primary or most responsible authority for rountine surveillance reports or findings, or where the site is located. Use the `organizations` table to describe attributes such as the name and address of the organziation. Use `orgType`, `orgLevel` and `orgSector` to describe additional attributes. For example,whether the organization is a government agency (`orgType`), local (`orgLevel`), or public health (`orgSector). If the attributes are not specified, the default is version 1.1.0 `publicHealthDepartment` defined as ’The public health department or region where the site is located. See also `healthReg` if there is a separate regional health care delivery authority.`
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Secondary reporting authority ID

(repOrg2). The secondary, additional or alternative authority for rountine surveillance reports or findings, or where the site is located. Use the `organizations` table to describe attributes such as the name and address of the organziation. Use `orgType`, `orgLevel` and `orgSector` to describe additional attributes. For example,whether the organization is a government agency (`orgType`), local (`orgLevel`), or public health (`orgSector). If the attributes are not specified, the default is version 1.1.0 `healthRegion`, The health planning authority where is site is located. defined as ‘The public health department or region where the site is located.’
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Reportable

(reportable). Flag for whether a measure is reportable or not, based on confidence in the measure and methods applied.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: booleanSet
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: boolean
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 10
Part Status: active. First released: active. Last updated: 2.1.0.

Report date

(reportDate). The date a measure was reported. This date is the first date the laboratory or enity reported the measure findings to the public health or other enity who ordered the measure or is responsible for action. Use the analyses end date if the measure is part of a research study or other purpose that does not have a reporting entity.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: datetime
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Reporter ID depreciated

(reporterIDDep). Unique identifier for the person or organization that is reporting the data.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: depreciated. First released: depreciated. Last updated: 2.0.0.

Reporter table depreciated

(reportersDep). The table that contains information about a reporter of a sample, method, measure, or attribute.
Part Type: tables
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: depreciated. First released: depreciated. Last updated: 2.0.0.

Report table input (wide table)

(reportTableInput). The short name for the listed source table.
Part Type: attributes
Domain: naDomain
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: shrtNameSet
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Report table name (wide table)

(reportTableName). The report table that the wide name calls from.
Part Type: attributes
Domain: naDomain
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Replicate Type

(repType). Attirbute of a sample, specifying whether the sample is unique, or a replicate. And if it is a replicate, what type of replicate is it?
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: replicateSet
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Resuspend COSCa filter collection

(resCosca). Nucleic acid extraction via resuspension of a sample collected using the COSCa ball method. See partID = cosca for additional details.
Part Type: categories
Domain: bio
Speciment ID: naSpecimenSet
Compartment Set: waterCompartmentSet
Group: procGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 10
Part Status: active. First released: active. Last updated: 2.0.0.

Research sector or organization

(research). Describes organizations whose focus is on research generation.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Results tables

(results). Tables used to record samples, measures and quality reports. These tables are updated whenever a new sample is taken or a measure is reported. Quality reports are used to report quality assurance and quality control for samples and measures.
Part Type: classes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: results
Nomenclature: results
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Resuspension method

(resuspension). Describes the method used for resuspending material.
Part Type: methods
Domain: phy
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: procGrp
Class: standardConc
Nomenclature: standardConc
Ontology Reference: NA
Category Set ID: resusSet
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Resuspension method set

(resusSet). The set to describe valid categorical values for the resuspension method.
Part Type: mmaSets
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: anyCompartmentSet
Group: procGrp
Class: standardConc
Nomenclature: standardConc
Ontology Reference: NA
Category Set ID: resusSet
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 50
Part Status: active. First released: active. Last updated: 2.2.0.

Retained Element

(retainedElement). The element retained after centrifugation, filtration, solid separation, etc.
Part Type: methods
Domain: phy
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: procGrp
Class: standardConc
Nomenclature: standardConc
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Retained Element Set

(retElSet). The set for enumerating the valid possible values of the retained element method.
Part Type: mmaSets
Domain: phy
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: procGrp
Class: standardConc
Nomenclature: standardConc
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 50
Part Status: active. First released: active. Last updated: 2.2.0.

Retention pond

(retPond). Retention pond
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: waterCompartmentSet
Group: colGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Rickettsia

(rickettsia). Rickettsia
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: rickettsiaGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Rickettsia Group

(rickettsiaGrp). A group of measures/methods related to ricketsia parasites. Used to describe the organism information for general measures.
Part Type: groups
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: rickettsiaGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

River, natural water body

(river). River, natural water body
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: waterCompartmentSet
Group: colGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

RNA Template

(rna). Ribonucleic Acid (RNA) template is used for PCR or sequencing work.
Part Type: categories
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: procGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Ribonuclease P (RNase P)

(rnaseP). Ribonuclease P (RNase P) (usually measured as a human fecal indicator)
Part Type: measurements
Domain: bio
Speciment ID: siSaSpecimenSet
Compartment Set: waterCompartmentSet
Group: procGrp
Class: standardConc
Nomenclature: standardConc
Ontology Reference: NA
Category Set ID: NA
Unit Set: stdConcentrationUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Role of contact

(role). Specifies the organizational role of a given contact.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Rotavirus

(rotavirus). Rotavirus
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: rotavirusGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Rotavirus Group

(rotavirusGrp). A group of measures/methods related to rotaviruses. Used to describe the organism information for general measures.
Part Type: groups
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: rotavirusGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Rate per 100,000

(rP100). Units for describing a population measure of a rate of case incidence per 100,000 people of a given disease. Unit for a population or disease measure to explain population-level clinical effects.
Part Type: units
Domain: bio
Speciment ID: poSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: float
Missingness Set: NA
Minimum Value: 0
Maximum Value: NA
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Revolutions per minute (RPM)

(rpm). RPM stands for “Revolutions per minute.” This is how centrifuge manufacturers generally describe how fast the centrifuge is going. The rotor, regardless of its size, is revolving at that rate.
Part Type: units
Domain: phy
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Raw post-pasteurized wastewater

(rppw). Raw wastewater sample post-pasteurization
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: waterCompartmentSet
Group: procGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Respiratory syncytial virus A and B combined

(rsvAB). Human Respiratory Syncytial Virus Type A (RSV A) and Type B (RSV B).
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: rsvGrp
Class: organism
Nomenclature: organism
Ontology Reference: https://ontobee.org/ontology/NCIT?iri=http://purl.obolibrary.org/obo/NCIT_C184696
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.1.3.

Respiratory syncytial virus A

(rsvAMe). Human Respiratory Syncytial Virus Type A (RSV A). Refer to Group = `rsv` and `rsv` for measure that are apply to either RSV A or RSV B.
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: rsvGrp
Class: organism
Nomenclature: organism
Ontology Reference: https://ontobee.org/ontology/NCIT?iri=http://purl.obolibrary.org/obo/NCIT_C184696
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.1.3.

Respiratory syncytial virus B

(rsvB). Human Respiratory Syncytial Virus Type B (RSV B). Refer to Group = `rsv` and `rsv` for measure that are apply to either RSV A or RSV B.
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: rsvGrp
Class: organism
Nomenclature: organism
Ontology Reference: https://ontobee.org/ontology/NCIT?iri=http://purl.obolibrary.org/obo/NCIT_C184697
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.1.3.

Respiratory syncytial virus (RSV) Group

(rsvGrp). Human Respiratory Syncytial virus (RSV). Refer to Group = `rsvA` and `rsvB` for measure that are specific to RSV A or RSV B, respectively.
Part Type: groups
Domain: bio
Speciment ID: poSpecimenSet
Compartment Set: anyCompartmentSet
Group: rsvGrp
Class: organism
Nomenclature: organism
Ontology Reference: http://purl.obolibrary.org/obo/NCIT_C14267
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.1.2.

Respiratory syncytial virus

(rsvMe). Human Respiratory Syncytial virus (RSV), generic measure. Refer to Group = `rsvA` and `rsvB` for measure that are specific to RSV A or RSV B, respectively.
Part Type: measurements
Domain: bio
Speciment ID: poSpecimenSet
Compartment Set: anyCompartmentSet
Group: rsvGrp
Class: organism
Nomenclature: organism
Ontology Reference: http://purl.obolibrary.org/obo/NCIT_C14267
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.1.2.

RSV N-gene

(rsvN). Human Respiratory syncytial Virus, N-gene region.
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: rsvGrp
Class: allele
Nomenclature: allele
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.1.3.

reverse transcription

(rt). Describes the reverse transcription cycle in a PCR process.
Part Type: categories
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Rubella

(rubella). Rubella
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: rubellaGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Rubella Group

(rubellaGrp). A group of measures/methods related to the rubella virus. Used to describe the organism information for general measures.
Part Type: groups
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: rubellaGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

s2083i omicron-variant gene target

(s2083i). s2083i omicron-variant gene target
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: sarsCov2
Class: mutation
Nomenclature: mutation
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

s371l omicron-variant gene target

(s371l). s371l omicron-variant gene target
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: sarsCov2
Class: mutation
Nomenclature: mutation
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

s373p omicron-variant gene target

(s373p). s373p omicron-variant gene target
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: sarsCov2
Class: mutation
Nomenclature: mutation
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

s375f omicron-variant gene target

(s375f). s375f omicron-variant gene target
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: sarsCov2
Class: mutation
Nomenclature: mutation
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

s477n omicron-variant gene target

(s477n). s477n omicron-variant gene target
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: sarsCov2
Class: mutation
Nomenclature: mutation
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Sample

(sa). A measure made on a compartment or property from a sample of a substance.
Part Type: specimens
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Salmonella

(salmonella). Salmonella
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: salmonellaGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Salmonella Group

(salmonellaGrp). A group of measures/methods related to salmonella bacteria. Used to describe the organism information for general measures.
Part Type: groups
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: salmonellaGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Sample material

(saMaterial). Type of sample.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: colGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: sampleMatSet
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Sample concentrate

(samConc). Sample concentrate.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: anyCompartmentSet
Group: procGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Sample ID

(sampleID). Unique identifier for a sample. Suggestion:siteID-date-index.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Sample ID object

(sampleIDObject). Populated by `sampleID` - this specifies the object of a sample relationship. Use `sampleID` for this field. Together with `sampleIDSub` and `relationshipID` the row of the `sampleRelationships` should say: [sampleIDSubject] is a[relationshipID] of [sampleIDObject]
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Sample ID subject

(sampleIDSubject). Populated by `sampleID` - this specifies the subject of a sample relationship. Use `sampleID` for this field. Together with `sampleIDSub` and `relationshipID` the row of the `sampleRelationships` should say: [sampleIDSubject] is a[relationshipID] of [sampleIDObject]
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Sample material set

(sampleMatSet). set for the types of material that can be found in a sample.
Part Type: mmaSets
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: sampleMatSet
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Sample quality set

(sampleQualitySet). Quality set for a sample.
Part Type: qualityIndSets
Domain: naDomain
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Sample relationships table

(sampleRelationships). Table for recording the relationships between samples. Samples can be pooled or split. The sample relationships table holds information on parent-child relationships between samples, and allow for tracking sample lineage for single and pooled samples.
Part Type: tables
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: results
Nomenclature: results
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Synthetic ID for the sampleRelationships table

(sampleRelationshipsID). A unique, autoincremental ID generated to produce a unique identifier and primary key for each row of the sampleRelationships table.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 50
Part Status: active. First released: active. Last updated: 2.2.0.

Sample relationships table column order

(sampleRelationshipsOrder). Specifies the order of the columns in a Sample Relationships table.
Part Type: tableSupport
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: integer
Missingness Set: NA
Minimum Value: 1
Maximum Value: NA
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Sample relationships table required headers

(sampleRelationshipsRequired). Specifies the columns required in a Sample Relationships table.
Part Type: tableSupport
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Sample relationships set

(sampleRelSet). set for valid values of relationshipID in the sampleRelationships table. Use only for sampleRelationships table relationshipID.
Part Type: mmaSets
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: sampleRelSet
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Sample report table

(samples). The table that contains information about a sample. A sample is defined as a representative volume of wastewater (or other forms of water or liquid), air, or surface area taken from a site. Samples can be combined, split, stored and reused. The `Sample relationships` (sampleRelationships) is used to describe the relationships between samples.
Part Type: tables
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: results
Nomenclature: results
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Sample shed

(sampleShed). A geographic area, physical space, or structure. A sample is taken from a sampleshed for a representative measurement of a substance(s). Examples: Airplane, Long-term care home, Neighbourhood, University campus, Municipality
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: anyCompartmentSet
Group: colGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: shedSet
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Samples table column order

(samplesOrder). Specifies the order of the columns in a Samples table.
Part Type: tableSupport
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: integer
Missingness Set: NA
Minimum Value: 1
Maximum Value: NA
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Sample table required headers

(samplesRequired). Specifies the columns required in a Samples table.
Part Type: tableSupport
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Collection other depreciated

(sampleTypeOther). Description for other type of method not listed in collection. depreciated.
Part Type: methods
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 100
Part Status: depreciated. First released: depreciated. Last updated: 2.0.0.

Sapovirus

(sapovirus). Sapovirus
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: sapovirusGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Sapovirus Group

(sapovirusGrp). A group of measures/methods related to sapoviruses. Used to describe the organism information for general measures.
Part Type: groups
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: sapovirusGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Sample relationships table Shorthand

(sar). The abbreviated short name used to reference the Table for recording the relationships between samples. table
Part Type: shortName
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.2.

SARS-CoV-2

(sarsCov2). A group of measures/methods related to the SARS-CoV-2 virus. SARS-CoV-2 measures have the following classes: proteins, alleles, variants, mutations, diseases.
Part Type: groups
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: sarsCov2
Class: naClass
Nomenclature: naClass
Ontology Reference: http://purl.obolibrary.org/obo/NCIT_C169076
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Sample report table Shorthand

(sas). The abbreviated short name used to reference the The table that contains information about a sample. A sample is defined as a representative volume of wastewater (or other forms of water or liquid), air, or surface area taken from a site. table
Part Type: shortName
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.2.

Sample specimen set

(saSpecimenSet). A specimen set that inculdes only a sample specimen.
Part Type: specimenSets
Domain: naDomain
Speciment ID: saSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Sparse coverage

(sC). Sequencing shows sparse coverage, ie. numerical breadth of coverage shows as adequate but coverage plots reveal missing genome pieces. If there are multiple issues to flage, use the multiple issues flag and explain the details in the notes section.
Part Type: qualityIndicators
Domain: naDomain
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Secondary clarifier effluent depreciated

(sce). Effluent obtained after secondary clarifiers. Deprecated in version 2, please do not use. Duplicate of the sampleMat categories - refer to those.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: waterCompartmentSet
Group: colGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: NA
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: depreciated. First released: depreciated. Last updated: 2.0.0.

Standard curve frequency

(scf). A method for specifying the frequecy over which a standard curve (or ‘Master Curve’) is used.
Part Type: methods
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: procGrp
Class: pcr
Nomenclature: pcr
Ontology Reference: NA
Category Set ID: NA
Unit Set: timeUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

School

(school). A school serving students in the kindergarten to 12th grade range
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: anyCompartmentSet
Group: colGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

sciencell viral rna isolation kit

(sciencellRNA). sciencell viral rna isolation kit
Part Type: categories
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: procGrp
Class: mutation
Nomenclature: mutation
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Sequencing script version set

(scriptSet). The set for script versions
Part Type: mmaSets
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: scriptSet
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: NA
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Genetic sequencing script version

(scriptVersion). Used to specify the script or script version used to extract summary information (i.e. coverage and mutation frequency statistics, etc.) from the sequencing output.
Part Type: methods
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: procGrp
Class: sequence
Nomenclature: sequence
Ontology Reference: NA
Category Set ID: scriptSet
Unit Set: unitlessUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Secondary clarifier sludge depreciated

(scsDep). Sludge produced by secondary clarifiers. Deprecated in version 2, please do not use. Duplicate of the sampleMat categories - refer to those.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: waterCompartmentSet
Group: colGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: NA
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: depreciated. First released: depreciated. Last updated: 2.0.0.

Standard deviation

(sd). Standard deviation.
Part Type: aggregations
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Normalized standard deviation

(sdn). Standard deviation, normalized.
Part Type: aggregations
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Sets look-up table Shorthand

(se). The abbreviated short name used to reference the Look up table for all sets, managing how categorical inputs for various methods and attributes are grouped together. table
Part Type: shortName
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.2.

Sea, natural water body

(sea). Sea, natural water body
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: waterCompartmentSet
Group: colGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Seconds

(seconds). The unit of time, seconds.
Part Type: units
Domain: allDo
Speciment ID: anySpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: time
Nomenclature: time
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

See unit (aggregation scales)

(seeUnitAggScale). A value for aggregation scale to be used when the aggregation scale depends on that specified in the parts list entry for the unit. When you encounter this value, see the unit being used for that entry and follow that aggregation scale entry.
Part Type: aggregationScales
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

See unit (data type)

(seeUnitData). The data type entry when the data type for a given entry is specified by the unit used. Only used for measures, which is where the data type entry is used to validate the entry in the value field. For these cases, however, the data type is more dependant on the unit than the measure , and so this entry directs users to consult the data type of the unit.
Part Type: dataTypes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 15
Part Status: active. First released: active. Last updated: 2.0.0.

See unit (value)

(seeUnitVal). A value for maximum or minimum value in the dictionary, use when the maximum or minimum value is determined by the unit. Used for measures when the constraints on maximum and minimmum value are specified by the unit, not the measure.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Secondary clarifier effluent

(sEfflu). Effluent obtained after secondary clarifiers
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: waterCompartmentSet
Group: colGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Access to self

(self). If this is ‘no’, this data will not be shown on the portal when this reporter logs in. If missing, data will be available to this reporter.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: booleanSet
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: boolean
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 1
Part Status: depreciated. First released: depreciated. Last updated: 2.0.0.

Date sample was sent

(sentDate). Date that the sample was sent from the collection site to the lab.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: datetime
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Septic tank wastewater

(septage). Wastewater from within a septic tank
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: waterCompartmentSet
Group: colGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Septic tank

(septTnk). Septic tank
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: waterCompartmentSet
Group: colGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Sequencing Layout

(seqLay). The layout of genetic material used in sequencing.
Part Type: methods
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: procGrp
Class: sequence
Nomenclature: sequence
Ontology Reference: NA
Category Set ID: seqLaySet
Unit Set: unitlessUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Sequencing Layout set

(seqLaySet). The set for the layout of genetic material used in sequencing
Part Type: mmaSets
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: seqLaySet
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: NA
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Sequencing quality set

(seqQualitySet). Quality set for sequencing measures
Part Type: qualityIndSets
Domain: naDomain
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Sequencing selection method

(seqSel). The primer sequence selection method used in sequencing.
Part Type: methods
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: procGrp
Class: sequence
Nomenclature: sequence
Ontology Reference: NA
Category Set ID: seqSelSet
Unit Set: unitlessUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Sequencing selection method set

(seqSelSet). The set for the selection method used in sequencing
Part Type: mmaSets
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: seqSelSet
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: NA
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Sequencing Strategy

(seqStrat). The sequencing strategy used for an analysis.
Part Type: methods
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: procGrp
Class: sequence
Nomenclature: sequence
Ontology Reference: NA
Category Set ID: seqStratSet
Unit Set: unitlessUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Sequencing Strategy set

(seqStratSet). The set for the sequencing strategy used for an analysis
Part Type: mmaSets
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: seqStratSet
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: NA
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Genetic sequences class

(sequence). Measures and methods related to genetic sequencing.
Part Type: classes
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: sequence
Nomenclature: sequence
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

serial dillution

(serDil). Describes a serial dilution process for standard curve generation for PCR.
Part Type: categories
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Serial dilution

(serialDilution). The serial dilution method for assessing inhibition.
Part Type: categories
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: procGrp
Class: dilution
Nomenclature: dilution
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Sewer Sediments Depreciated

(seseDep). Sediments obtained in sewer.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: waterCompartmentSet
Group: colGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: NA
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: depreciated. First released: depreciated. Last updated: 2.0.0.

Composite Set ID

(setCompID). A composite ID generated by concatennating the ‘setID’ and ‘partID’ of a given row in the sets table. This allows for a unique primary key and robust relational database structure.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 60
Part Status: active. First released: active. Last updated: 2.2.2.

Set ID

(setID). The unique identifier of a value set. A set is a group of units, attributes, categories, specimens, or compartments that can be used for a measure, method or attribute.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 28
Part Status: active. First released: active. Last updated: 2.0.0.

Sets look-up table

(sets). Look up table for all sets, managing how categorical inputs for various methods and attributes are grouped together. This table manages many-to-many relationships and category recycling within the ODM.
Part Type: tables
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: lookup
Nomenclature: lookup
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Sets table column order

(setsOrder). Specifies the order of the columns in the Sets table.
Part Type: tableSupport
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: integer
Missingness Set: NA
Minimum Value: 1
Maximum Value: NA
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Sets table required headers

(setsRequired). Required headers in the Sets table.
Part Type: tableSupport
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Settled solids

(settsol). Amount of settled solids from a wastewater sample. May be a volume or a weight, see the unitID for a given measure row for details on a given sample.
Part Type: measurements
Domain: phy
Speciment ID: saSpecimenSet
Compartment Set: waterCompartmentSet
Group: procGrp
Class: physical
Nomenclature: physical
Ontology Reference: NA
Category Set ID: NA
Unit Set: volumeUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: integer
Missingness Set: genMissingnessSet
Minimum Value: 0
Maximum Value: NA
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Set type

(setType). The type of set. i.e. quality set, aggregation set, unit set
Part Type: partSupport
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: waterCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: NA
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Severity indicator

(severity). An indicator of the severity or seriousness of a quality flag.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: sevSet
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Severity set

(sevSet). A set for severity indicators.
Part Type: mmaSets
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: sevSet
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Sewage equivalent

(sewEq). Equivalent unconcentrated volume of wastewater or mass of sludge in PCR reaction
Part Type: measurements
Domain: phy
Speciment ID: saSpecimenSet
Compartment Set: waterCompartmentSet
Group: procGrp
Class: standardConc
Nomenclature: standardConc
Ontology Reference: NA
Category Set ID: NA
Unit Set: volumeUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: integer
Missingness Set: genMissingnessSet
Minimum Value: 0
Maximum Value: NA
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Sewage travel time

(sewTrTi). A measure of sewage travel time, often approximate, from sewage source to the sampling site.
Part Type: measurements
Domain: phy
Speciment ID: siSpecimenSet
Compartment Set: waterCompartmentSet
Group: siteFeat
Class: physical
Nomenclature: physical
Ontology Reference: NA
Category Set ID: NA
Unit Set: timeUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: integer
Missingness Set: genMissingnessSet
Minimum Value: 0
Maximum Value: NA
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

S sars-cov-2 gene target

(sGene). S sars-cov-2 gene target
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: sarsCov2
Class: allele
Nomenclature: allele
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Shaker aggitation speed

(shaker). The speed/aggitation level for a shaker plate/shaker platform.
Part Type: measurements
Domain: phy
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: procGrp
Class: speed
Nomenclature: speed
Ontology Reference: NA
Category Set ID: NA
Unit Set: speedUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Sampleshed set

(shedSet). The set for all valid values of sampleshed.
Part Type: mmaSets
Domain: naDomain
Speciment ID: siSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Shigella

(shigella). Shigella
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: shigellaGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Shigella Group

(shigellaGrp). A group of measures/methods related to shigella bacteria. Used to describe the organism information for general measures.
Part Type: groups
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: shigellaGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Ship

(ship). A cruise ship or other ship.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: anyCompartmentSet
Group: colGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Shipped on ice

(shipOnIce). Was the sample kept cool while being shipped to the lab
Part Type: methods
Domain: allDo
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: procGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: booleanSet
Unit Set: unitlessUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 1
Part Status: active. First released: active. Last updated: 2.0.0.

Short names

(shortName). Shortened names for tables and other important parts for use in wide names.
Part Type: partType
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Short Name Set

(shrtNameSet). The abbreviated short name used to reference the The table that contains information about addresses. Addresses can recorded for sites, organizations or contacts (indivduals).
Part Type: mmaSets
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.2.

Single

(sin). A value that is not an aggregate measurement (ie. not a mean, median, max or any other) and can be a replicate value.
Part Type: aggregations
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Single Layout

(sinLay). Specifies the single layout for a sequencing method
Part Type: categories
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Singleplex, probe-based, one-step RT-qPCR

(sinProbeOne). Describes a PCR method that is singleplex, probe-based, and one-step RT-qPCR.
Part Type: categories
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: procGrp
Class: pcr
Nomenclature: pcr
Ontology Reference: NA
Category Set ID: NA
Unit Set: unitlessUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Skimmed milk flocculation

(skimMilkFloc). Skimmed milk flocculation
Part Type: categories
Domain: che
Speciment ID: naSpecimenSet
Compartment Set: waterCompartmentSet
Group: procGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Sample Limit of Detection (LOD)

(slod). The minimum level of a target within a sample that would be consistently detectable considering all sample processing steps, from sample concentration leading up to and including amplification and quantification steps of RT-qPCR. In this Protocol, the SLOD is the concentration factor-adjusted ALOD, which provides a theoretical estimate of the minimum concentration in the original sample that would yield consistent detection of the target, assuming no method losses.
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: procGrp
Class: pcr
Nomenclature: pcr
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

slope

(slope). Slope value of the calibration curve. Used for storing calibration curve information, potentially also applicable for other curve types.
Part Type: units
Domain: allDo
Speciment ID: siSaSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: standardCurve
Nomenclature: standardCurve
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: float
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Wastewater Sludge - non-specified

(sludgeNS). Sample material is wastewater sludge - whether primary, secondary or other is unspecified.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: waterCompartmentSet
Group: colGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.3.

Snowy

(snowy). Qualitative category for the weather measure, specifying a snowy day.
Part Type: categories
Domain: phy
Speciment ID: siSpecimenSet
Compartment Set: anyCompartmentSet
Group: siteFeat
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Solid fraction

(sol). Solid fraction of a sample.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: waterCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Solids/Pellet retained

(solid). The solids or pellet is retained after solid separation/centrifugation.
Part Type: categories
Domain: phy
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: procGrp
Class: standardConc
Nomenclature: standardConc
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Solid seperation

(solidSep). Process used to separate solid and liquid phases of the sample. Solid seperation is used either prior to or in the absence of the concentration method specified in ‘methodConc’.
Part Type: methods
Domain: allDo
Speciment ID: saSpecimenSet
Compartment Set: waterCompartmentSet
Group: procGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: solidSeparationSet
Unit Set: unitlessUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Solid separation set

(solidSeparationSet). set for the separation of solids.
Part Type: mmaSets
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: solidSeparationSet
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Wide name source

(source). The database or table sourced for the wide name.
Part Type: attributes
Domain: naDomain
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Source Protocol ID

(sourceProtocol). A protocol that served as a basis for another protocol. This may be due to version changes, or a referencing a protocol that was later adapted. Populate with protocolID.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Protocol step source ID

(sourceStep). Specifies the protocol step which serves as a basis for a given protocol step. Populate with a protocol step ID (stepID).
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Sovereign status of a country

(sovereignty). Sovereign status of a country, indicating which state has the highest jurisdiction over a given territory. Preprogrammed into dictionary tables, not editable by users.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 50
Part Status: active. First released: active. Last updated: 2.1.0.

Specific humidity

(specHum). Measure for specific humidity, the unit is the ratio of the mass of water vapour and the mass of total air.
Part Type: measurements
Domain: phy
Speciment ID: siSpecimenSet
Compartment Set: anyCompartmentSet
Group: siteFeat
Class: humid
Nomenclature: humid
Ontology Reference: NA
Category Set ID: NA
Unit Set: specHumidUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Specific humidity unit set

(specHumidUnitSet). Unit set for specific humidity.
Part Type: unitSets
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: specHumidUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Specifies

(specifies). Specifies that the object step or protocol occurs specifies details for the subject step or protocol in the overall protocol container. Use only for protocolRelationships table relationshipID.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Specimen

(specimen). The substance or thing upon which the observation was made. Specimens include: site, sample, person and population.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 12
Part Status: active. First released: active. Last updated: 2.0.0.

Specimen input (wide table)

(specimenInput). The partID for the specimen being used in a wide name.
Part Type: attributes
Domain: naDomain
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Specimen name (wide table)

(specimenName). The specimen referenced for the wide name.
Part Type: attributes
Domain: naDomain
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Specimens

(specimens). Measures or observations are taken from three types of substances: populations (humans or geographic areas), samples, sites. See partID = specimentID
Part Type: partType
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Specimen Set Header

(specimenSet). An idenfication of a set of specimens that can be applied for a measure or method.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.2.

Specimen sets

(specimenSets). Sets of specimens. Specimen sets are used when a measure or attribute can be recorded for more than one specimen.
Part Type: partType
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 15
Part Status: active. First released: active. Last updated: 2.0.0.

Speed class

(speed). Measures and methods relating to speed.
Part Type: classes
Domain: phy
Speciment ID: siSaSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: speed
Nomenclature: speed
Ontology Reference: NA
Category Set ID: NA
Unit Set: windSpeedUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Speed Unit Set

(speedUnitSet). Unit set for reporting speeds (centrifugation speed, etc.)
Part Type: unitSets
Domain: phy
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: speedUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Spike matrix and recovery

(spike). The spike matrix and recovery method for assessing inhibition.
Part Type: categories
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: procGrp
Class: pcr
Nomenclature: pcr
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Spike Concentration

(spikeConc). Concentration of the recovery efficiency target in a spike matrix and recovery assay.
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: procGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: integer
Missingness Set: genMissingnessSet
Minimum Value: 0
Maximum Value: NA
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Spike material

(spikeMat). Material into which the recovery efficiency control target is spiked.
Part Type: methods
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: procGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: spikeMatSet
Unit Set: unitlessUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 4
Part Status: active. First released: active. Last updated: 2.0.0.

Spike material set

(spikeMatSet). set for spikeMat (aterial into which the recovery efficiency control target is spiked).
Part Type: mmaSets
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: spikeMatSet
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Recovery efficiency spike target

(spikeTarget). Method specifying the recovery efficiency control target. This matches on to the the spike material method ID. Should typically be indexed as a step proceeding the spikeMaterial methodID step.
Part Type: methods
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: procGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: spikeTargetSet
Unit Set: unitlessUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Recovery efficiency spike target set

(spikeTargetSet). The set capturing containing all of the valid categories for the recovery efficiency control (or spike) target.
Part Type: mmaSets
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: spikeTargetSet
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Sample spilled

(spill). Sample contents spilled from container.
Part Type: qualityIndicators
Domain: naDomain
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Secondary clarifier sludge

(sSludge). Sludge produced by secondary clarifiers
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: waterCompartmentSet
Group: colGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Social services shelter

(sss). Other type of social services shelter
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: anyCompartmentSet
Group: colGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Stabilization pond

(stabPnd). Specifies a site type which is a pond designed and built for wastewater treatment to reduce the organic content and remove pathogens from wastewater.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: waterCompartmentSet
Group: colGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Standard concentrations class

(standardConc). Measures and methods relating to standard conentrations.
Part Type: classes
Domain: phy
Speciment ID: siSaSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: standardConc
Nomenclature: standardConc
Ontology Reference: NA
Category Set ID: NA
Unit Set: stdConcentrationUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Standard curve class

(standardCurve). Measures and methods relating to generating or recording a standard curve.
Part Type: classes
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: standardCurve
Nomenclature: standardCurve
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Staphylococcus Group

(staphGrp). A group of measures/methods related to staphylococcus bacteria. Used to describe the organism information for general measures.
Part Type: groups
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: staphGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Departments, states, or provinces

(stateProvLevel). Departments, states, or provinces
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: nrNAMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: depreciated. First released: depreciated. Last updated: 2.1.0.

State, Province, or Region

(stateProvReg). The state, province, or region where a site or organization is located; part of the address.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Status

(status). Whether the part is still active and can be used in the most current ODM version. Values are ‘active’ or ‘inactive’. The status of the part or list. ‘active’ means the part is used in the dictionary version. ‘inactive’ means the part has been retired and not longer used in the version.
Part Type: partSupport
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: statusSet
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Status set

(statusSet). A set for partID = Status to indicate whether a part is in current use or not.
Part Type: mmaSets
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Standard concentration unit set

(stdConcentrationUnitSet). Unit set for concentration measurements.
Part Type: unitSets
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: stdConcentrationUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Standard Curve Calculation Method

(stdCurveMet). Describes the specific approach used for calculating a standard curve.
Part Type: methods
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: measGrp
Class: pcr
Nomenclature: pcr
Ontology Reference: NA
Category Set ID: stdCurveSet
Unit Set: unitlessUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Standard Curve Calculation Set

(stdCurveSet). The set capturing containing all of the valid methods for the PCR standard curve calculations.
Part Type: mmaSets
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: stdCurveSet
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 50
Part Status: active. First released: active. Last updated: 2.2.0.

Shiga-toxin-producing Escheria coli (STEC)

(stec). Shiga-toxin-producing Escheria coli (STEC).
Part Type: measurements
Domain: bio
Speciment ID: poSaSpecimenSet
Compartment Set: anyCompartmentSet
Group: ecoliGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: bacteriaUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.1.0.

Storage temp

(sTemp). Temperature that the sample is stored at in Celsius.
Part Type: measurements
Domain: phy
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: procGrp
Class: temperature
Nomenclature: temperature
Ontology Reference: NA
Category Set ID: NA
Unit Set: temperatureUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: float
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Protocol Step ID

(stepID). The unique identifier for a specific protocol step. Protocol Steps are the component parts of a larger protocols, the latter being linked to specific measure reports.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Step ID Object

(stepIDObj). The object of the relationship between one protocol step and another step or protocol, within a given protocol ID container. Populate this field using Protocol Step ID (partID = stepID). Together with `protocolIDSub` or `stepIDSub` and `relationshipID` the row of `protocolRelationships` should say: [protocolIDSubject or stepIDSubject] [relationshipID] [protocolIDObject or stepIDObject]. Ex: stepIDSubject precedes protocolIDObject.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: integer
Missingness Set: genMissingnessSet
Minimum Value: 1
Maximum Value: NA
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Step ID Subject

(stepIDSub). The subject of the relationship between one protocol step and another step or protocol, within a given protocol ID container. Populate this field using Protocol ID (partID = stepID). Together with `protocolIDSub` or `stepIDSub` and `relationshipID` the row of `protocolRelationships` should say: [protocolIDSubject or stepIDSubject] [relationshipID] [protocolIDObject or stepIDObject]. Ex: stepIDSubject precedes protocolIDObject.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Method step parent ID

(stepProvenanceID). A method step that served as a basis for another method step. This may be due to version changes, or a referencing a method set that was later adapted.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: depreciated. First released: depreciated. Last updated: 2.0.0.

Protocol step version

(stepVer). Specifies the version of a given protocol step. Version of the method step. Semantic versioning is recommended.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 50
Part Status: active. First released: active. Last updated: 2.0.0.

Standard Error

(stEr). The standard error of a series of measurements.
Part Type: aggregations
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Storage time

(stoTim). Length of time that a sample was in storage.
Part Type: measurements
Domain: allDo
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: procGrp
Class: time
Nomenclature: time
Ontology Reference: NA
Category Set ID: NA
Unit Set: timeUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: float
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Streptococcus Group

(strepGrp). A group of measures/methods related to streptococcus bacteria. Used to describe the organism information for general measures.
Part Type: groups
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: strepGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Streptococcus pneumoniae

(strepPneu). Streptococcus pneumoniae
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: strepGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Summary worksheet Shorthand

(su). The abbreviated short name used to reference the Summary sheet of the dictionary.xlxs file. sheet support
Part Type: shortName
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.2.

Sub-variant or lineage

(subVar). A unit used to report a specific genetic lineage, or to specify that a reported variant is a sub-variant of another. Combine in a measure report if necessary.
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: miscMeas
Class: variant
Nomenclature: variant
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Sucralose

(suc). Sucralose (usually measured as a human fecal chemical indicator)
Part Type: measurements
Domain: che
Speciment ID: siSaSpecimenSet
Compartment Set: waterCompartmentSet
Group: procGrp
Class: standardConc
Nomenclature: standardConc
Ontology Reference: NA
Category Set ID: NA
Unit Set: stdConcentrationUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Rolling sum of previous 14 days

(sum14). The rolling sum of case counts/some kind of count over the previous 14 days. Aggregation for a population or disease measure to explain population-level clinical effects.
Part Type: aggregations
Domain: naDomain
Speciment ID: poSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Summary

(summ). Short description of the assay and how it is different from the other assay methods.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 255
Part Status: active. First released: active. Last updated: 2.0.0.

Summary worksheet

(summary). Summary sheet of the dictionary.xlxs file. The summary sheet contains versioning and changelog.
Part Type: dictionarySupport
Domain: naDomain
Speciment ID: saSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Sunny

(sunny). Qualitative category for the weather measure, specifying a clear and sunny day.
Part Type: categories
Domain: phy
Speciment ID: siSpecimenSet
Compartment Set: anyCompartmentSet
Group: siteFeat
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Surface compartment

(surf). A measure or observation made from a substance on a surface.
Part Type: compartments
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: surfaceCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 15
Part Status: active. First released: active. Last updated: 2.0.0.

Other surface

(surface). Surface other than floor or desk. See also categories for floor and desk.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: surfaceCompartmentSet
Group: colGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Surface compartment set

(surfaceCompartmentSet). A compartment set for measures and methods in the surface compartment.
Part Type: compartmentSets
Domain: allDo
Speciment ID: anySpecimenSet
Compartment Set: surfaceCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 15
Part Status: active. First released: active. Last updated: 2.0.0.

Surface and water compartment set

(surfaceWaterCompartmentSet). A compartment set for measures and methods in the surface or water compartments.
Part Type: compartmentSets
Domain: allDo
Speciment ID: anySpecimenSet
Compartment Set: surfaceWaterCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 15
Part Status: active. First released: active. Last updated: 2.0.0.

Surface swab

(surfSw). Surface swab.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: surfaceCompartmentSet
Group: colGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Sewage truck

(swgTrck). Sewage truck
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: waterCompartmentSet
Group: colGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Sewer sediment

(swrSed). Sediments obtained in sewer
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: waterCompartmentSet
Group: colGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Sewer catchment area

(swrSet). Sewer catchment area.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: waterCompartmentSet
Group: colGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Synthetic sample

(synthetic). A synthetic or artificially generated sample. Synthetic samples are artificially created by mixing known quantities of target substances or organisms with clean water, often in a laboratory setting. These samples are used as controls, benchmarks, or calibration standards during the analysis process to ensure accurate and reliable results. For instance, a synthetic sample containing a known concentration of a specific pollutant might be used to calibrate analytical equipment or to test the efficiency of a new detection method.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

t19r delta-variant gene target

(t19r). t19r delta-variant gene target
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: sarsCov2
Class: mutation
Nomenclature: mutation
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

t3646a delta-variant gene target

(t3646a). t3646a delta-variant gene target
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: sarsCov2
Class: mutation
Nomenclature: mutation
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

t547k omicron-variant gene target

(t547k). t547k omicron-variant gene target
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: sarsCov2
Class: mutation
Nomenclature: mutation
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

t9i omicron-variant gene target

(t9i). t9i omicron-variant gene target
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: sarsCov2
Class: mutation
Nomenclature: mutation
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Tables

(tables). Tables are where measures, methods and attributes are recorded. Tables represent the main entities of the environmental surveillance. There An example of a table is `site` a collection of attributes such as site name and address to describe where environment samples are taken. PHES-ODM has report tables, but users can create their own tables as well.
Part Type: partType
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Table column set

(tableSet). The set for valid inputs in table columns. These categories are used in the parts list for columns named after tables to indicate the position and function of a given part in the entity relationship diagram of the data model.
Part Type: mmaSets
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: tableSet
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Table Support

(tableSupport). Parts designed to support the metadata definition oftables in the parts table.
Part Type: partType
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

TaqPath N sars-cov-2 gene target

(taqpatN). TaqPath N sars-cov-2 gene target
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: sarsCov2
Class: mutation
Nomenclature: mutation
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

TaqPath S sars-cov-2 gene target

(taqpatS). TaqPath N sars-cov-2 gene target
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: sarsCov2
Class: mutation
Nomenclature: mutation
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Sample temperature

(temp). Temperature of the sample measured in degrees Celcius
Part Type: measurements
Domain: phy
Speciment ID: siSaSpecimenSet
Compartment Set: anyCompartmentSet
Group: waterQualityGrp
Class: temperature
Nomenclature: temperature
Ontology Reference: NA
Category Set ID: NA
Unit Set: temperatureUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: float
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Temperature class

(temperature). Measures and methods related to temperatures.
Part Type: classes
Domain: phy
Speciment ID: siSaSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: temperature
Nomenclature: temperature
Ontology Reference: NA
Category Set ID: NA
Unit Set: temperatureUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Temperature unit set

(temperatureUnitSet). Unit set for temperature measurements.
Part Type: unitSets
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: temperatureUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Template Sheet Set

(templateSheetSet). Worksheets in the full generic ODM surveillance template (all tables).
Part Type: dictSets
Domain: naDomain
Speciment ID: saSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Nucelic Acid Template Type

(tempType). Specifies whether a PCR or sequencing used RNA or DNA as the template for the reaction.
Part Type: methods
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: procGrp
Class: standardConc
Nomenclature: standardConc
Ontology Reference: NA
Category Set ID: tempSet
Unit Set: naUnitSet
Aggregation Scale: qualAggScale
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Nucleic acid template volume

(tempVol). The volume of DNA or RNA template used for PCR.
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: procGrp
Class: physical
Nomenclature: physical
Ontology Reference: NA
Category Set ID: NA
Unit Set: volumeUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: integer
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Airport terminal

(terminal). Airport terminal sample shed category type
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Test date

(tesDate). Date that the covid-19 test was performed.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: NA
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: depreciated. First released: depreciated. Last updated: 2.0.0.

Number of tests performed

(test). Number of tests performed.
Part Type: units
Domain: bio
Speciment ID: poSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: integer
Missingness Set: NA
Minimum Value: 0
Maximum Value: NA
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Testing

(testing). A measure or sample taken to test a new method. These measures are typically used for internal lab uses and not reported to external partners.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Tetracycline Anti-microbial resistance Group

(tetAMRGrp). The group for measures and methods pertaining to tetracycline-related anti-microbial resistance.
Part Type: groups
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: tetAMRGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 50
Part Status: active. First released: active. Last updated: 2.1.0.

TetW Tetracycline-resistance gene target

(tetW). The tetW tetracycline anti-microbial resistance gene target.
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: tetAMRGrp
Class: allele
Nomenclature: allele
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: https://www.mediterranee-infection.com/acces-ressources/base-de-donnees/arg-annot-2/
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

thermo magmax microbiome ultra nucleic acid isolation kit

(thermMag). Nucleic acid extraction performed using the thermo magmax microbiome ultra nucleic acid isolation kit.
Part Type: categories
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: procGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

thermo magmax viral/pathogen nucleic acid isolation kit

(thermMagmax). thermo magmax viral/pathogen nucleic acid isolation kit
Part Type: categories
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: procGrp
Class: mutation
Nomenclature: mutation
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Transport hub - General

(tHub). A tansport hub not otherwise specified. i.e. a place where passengers and cargo are exchanged between vehicles or/and between transport modes.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: anyCompartmentSet
Group: colGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.3.

Time class

(time). Measures and methods relating to time.
Part Type: classes
Domain: allDo
Speciment ID: siSaSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: time
Nomenclature: time
Ontology Reference: NA
Category Set ID: NA
Unit Set: timeUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Time proportional sample

(timePr). A time proportional composite sample generally collected by an autosampler. Use collectionPeriod to describe how many hours the sample was taken.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: waterCompartmentSet
Group: colGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Time unit set

(timeUnitSet). The unit set for measures of time.
Part Type: unitSets
Domain: allDo
Speciment ID: anySpecimenSet
Compartment Set: anyCompartmentSet
Group: miscMeas
Class: time
Nomenclature: time
Ontology Reference: NA
Category Set ID: NA
Unit Set: timeUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Total Kjeldahl Nitrogen

(tkn). A measure of Total Kjeldahl Nitrogen; ie. the sum of nitrogen bound in organic substances, nitrogen in ammonia (NH3-N) and in ammonium (NH4+-N) in the chemical analysis of soil, water, or waste water.
Part Type: measurements
Domain: che
Speciment ID: siSaSpecimenSet
Compartment Set: waterCompartmentSet
Group: miscMeas
Class: standardConc
Nomenclature: standardConc
Ontology Reference: NA
Category Set ID: NA
Unit Set: stdConcentrationUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Country code top-level domain

(tld). The internet top-level domain generally used or reserved for a country, sovereign state, or dependent territory identified with a country code. Preprogrammed into dictionary tables, not editable by users.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 3
Maximum Length: 3
Part Status: active. First released: active. Last updated: 2.1.0.

Total Nitrogen

(tn). Total nitrogen concentration, as N.
Part Type: measurements
Domain: che
Speciment ID: siSaSpecimenSet
Compartment Set: waterCompartmentSet
Group: waterQualityGrp
Class: standardConc
Nomenclature: standardConc
Ontology Reference: NA
Category Set ID: NA
Unit Set: stdConcentrationUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Total amount or count - the sum

(total). The total number or final count of cases, or other defined metric. Aggregation for a population or disease measure to explain population-level clinical effects.
Part Type: aggregations
Domain: naDomain
Speciment ID: poSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Time Proportional 24hr sample

(tp24s). A time proportional 24-hour composite sample generally collected by an autosampler.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: waterCompartmentSet
Group: colGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: NA
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: depreciated. First released: depreciated. Last updated: 2.0.0.

Treponema pallidum

(tPallidum). Treponema pallidum
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: treponemaGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Translation look-up table Shorthand

(tr). The abbreviated short name used to reference the Look up table for translations of the description, label, and instruction for all parts. table
Part Type: shortName
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.2.

Train

(train). A series of railroad cars moved as a unit by a locomotive or by integral motors.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: anyCompartmentSet
Group: colGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.3.

Synthetic ID for the translations table

(translationID). A unique, autoincremental ID generated to produce a unique identifier and primary key for each row of the translations table.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 50
Part Status: active. First released: active. Last updated: 2.2.0.

Translation look-up table

(translations). Look up table for translations of the description, label, and instruction for all parts. The default language if a translation is not specified is English.
Part Type: tables
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: lookup
Nomenclature: lookup
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Translation table column order

(translationsOrder). Specifies the order of the columns in the Translation table.
Part Type: tableSupport
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: integer
Missingness Set: NA
Minimum Value: 1
Maximum Value: NA
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Translation table required headers

(translationsRequired). Required headers in the Translations table.
Part Type: tableSupport
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Transportation vehicle - general

(transp). A vehicle, i.e. a mobile machine, transporting people or cargo, of a type not otherwise specified.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: anyCompartmentSet
Group: colGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.3.

Passive (trap) sampling

(trap). A composite sampler that passively collects a sample without use of electricity or a battery.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: waterCompartmentSet
Group: colGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.3.

Treponema Group

(treponemaGrp). A group of measures/methods related to treponema bacteria. Used to describe the organism information for general measures.
Part Type: groups
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: treponemaGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Trichomonas Group

(trichomonasGrp). A group of measures/methods related to trichomonas bacteria. Used to describe the organism information for general measures.
Part Type: groups
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: trichomonasGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Wastewater Triturator

(triturator). The location where wastewater transportation vehicles unload wastewater.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: anyCompartmentSet
Group: colGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.3.

trizol, zymo mag beads w/ zymo clean and concentrator

(trizol). Nucleic acid extraction performed using the trizol, zymo mag beads w/ zymo clean and concentrator method.
Part Type: categories
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: procGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

trizol, garnet bead beating, alcohol precipitation

(trizolEtOH). trizol, garnet bead beating, alcohol precipitation
Part Type: categories
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: procGrp
Class: mutation
Nomenclature: mutation
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

trizol and RNA purification kit

(trizolRNA). trizol and RNA purification kit
Part Type: categories
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: procGrp
Class: mutation
Nomenclature: mutation
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Train Station

(trStat). A place on a railroad line where trains regularly stop so that passengers can get on or off.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: anyCompartmentSet
Group: colGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.3.

TRUE

(TRUE). Boolean data type = TRUE Use only “TRUE” (case sensitive)
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: boolean
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 4
Maximum Length: 4
Part Status: active. First released: active. Last updated: 2.0.0.

Total solids concentration

(ts). Total solids concentration
Part Type: measurements
Domain: che
Speciment ID: siSaSpecimenSet
Compartment Set: waterCompartmentSet
Group: waterQualityGrp
Class: standardConc
Nomenclature: standardConc
Ontology Reference: NA
Category Set ID: NA
Unit Set: stdConcentrationUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Total suspended solids

(tss). Total suspended solids
Part Type: measurements
Domain: che
Speciment ID: siSaSpecimenSet
Compartment Set: waterCompartmentSet
Group: waterQualityGrp
Class: standardConc
Nomenclature: standardConc
Ontology Reference: NA
Category Set ID: NA
Unit Set: stdConcentrationUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Concentration of total suspended solids

(tssConc). Total suspended solids concentration of the wastewater.
Part Type: measurements
Domain: phy
Speciment ID: siSaSpecimenSet
Compartment Set: waterCompartmentSet
Group: miscMeas
Class: standardConc
Nomenclature: standardConc
Ontology Reference: NA
Category Set ID: NA
Unit Set: stdConcentrationUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Tuberculosis Group

(tuberculosisGrp). A group of measures/methods related to tuberculosis. Used to describe the organism information for general measures.
Part Type: groups
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: tuberculosisGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Francisella tularensis (tularemia) Group

(tularemiaGrp). A group of measures/methods related to Francisella tularensis. Used to describe the organism information for general measures.
Part Type: groups
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: tularemiaGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Turbidity

(turb). A measure for the turbidity of water, or a liquid sample, quanitfying the relative clarity or opcaity of a liquid. Highly indicative of water quality.
Part Type: measurements
Domain: phy
Speciment ID: siSaSpecimenSet
Compartment Set: waterCompartmentSet
Group: miscMeas
Class: turbidity
Nomenclature: turbidity
Ontology Reference: NA
Category Set ID: NA
Unit Set: turbidityUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Turburdity class

(turbidity). Measures and methods relating to water and wastewater turbidity.
Part Type: classes
Domain: che
Speciment ID: siSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: turbidity
Nomenclature: turbidity
Ontology Reference: NA
Category Set ID: NA
Unit Set: turbidityUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Turbidity unit set

(turbidityUnitSet). Unit set for turbidity measurements.
Part Type: unitSets
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: waterCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: turbidityUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Trichomonas vaginalis

(tVaginalis). Trichomonas vaginalis
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: trichomonasGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Type other depreciate

(tyOtDep). Description for other type of sample not listed in
Part Type: methods
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 100
Part Status: depreciated. First released: depreciated. Last updated: 2.0.0.

Type other depreciate2

(tyOtDep2). Description of the site when the site is not listed. See siteType.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 100
Part Status: depreciated. First released: depreciated. Last updated: 2.0.0.

University campus

(uCampus). Universityor college campus - comprising an entire campus or part of a campus. See also ’Higher Education Domitory”.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: anyCompartmentSet
Group: colGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Micrograms per gram

(ugG). Micrograms per gram
Part Type: units
Domain: allDo
Speciment ID: siSaSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: standardConc
Nomenclature: standardConc
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: integer
Missingness Set: NA
Minimum Value: 0
Maximum Value: NA
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Micrograms per litre

(ugL). Micrograms per litre
Part Type: units
Domain: allDo
Speciment ID: siSaSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: standardConc
Nomenclature: standardConc
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: integer
Missingness Set: NA
Minimum Value: 0
Maximum Value: NA
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Micrograms per milligram

(ugmg). Concentration unit of micrograms per milligram.
Part Type: units
Domain: allDo
Speciment ID: siSaSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: standardConc
Nomenclature: standardConc
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: integer
Missingness Set: NA
Minimum Value: 0
Maximum Value: NA
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Micro-litres

(uL). The unit of microlitres.
Part Type: units
Domain: che
Speciment ID: siSaSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: standardConc
Nomenclature: standardConc
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Undisclosed

(undisc). A value has been recorded, however it was not included in the dataset. Missing value indicator for data that has not been shared or disclosed with outside parties.
Part Type: missingness
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Unique sample

(unique). A unique sample, not duplicated.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Unit

(unit). The units of a measurement. Different units that are used to describe measurement values. Units are combined into UnitSetIDs. Please requests new units by creating an issue in the ODM repository.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Unit input (wide table)

(unitInput). The partID for the unit being used in a wide name.
Part Type: attributes
Domain: naDomain
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Unitless measure

(unitless). A unit for unitless measures, like pH.
Part Type: units
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: float
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Unitless unit set

(unitlessUnitSet). Unit set for measurements that does not have units.
Part Type: unitSets
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: unitlessUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Unit name (wide table)

(unitName). The unit referenced for the wide name.
Part Type: attributes
Domain: naDomain
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Units

(units). The unit of the measurement. Every measurement must have a unit. Meaning, `units` are a mandatory field whenever a measurement is recorded.
Part Type: partType
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Unit set

(unitSet). An idenfication of a set of units that can be used for a measure or method.
Part Type: attributes
Domain: che
Speciment ID: naSpecimenSet
Compartment Set: waterCompartmentSet
Group: procGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Unit sets

(unitSets). Sets of units. Contains units that are associated with part types such as measures. Sets are lists of input values. Each input value within a set is a part (has a partID) that can be reused between sets. For example, a set A could contain the values of ‘yes’ and ‘no’; and set B could contain the values of ‘yes’, ‘no’, and ‘maybe.’ partTypes with sets include aggregations, compartments, missingness, quality flags, specimens, and units. Measures with categories and dataTypes have their own specific sets (catSetID) because their input values are unique and are not reused.
Part Type: partType
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 15
Part Status: active. First released: active. Last updated: 2.0.0.

The Unlicense

(unlicense). The licensing for the measure or data set is managed under The Unlicense.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: https://choosealicense.com/licenses/unlicense/
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Ultracentrifugation

(untracent). Ultracentrifugation Should typically be linked to a lower limit, and some indication of data spread (ie. standard deviation), and a mean/median measure.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Upper limit of a 95% confidence interval

(upperCI95). Specifies the the upper limit of a 95% confidence interval. A catch-all category for upstream wastewater sampling sites, including major sewer pipelines and pumping stations.
Part Type: aggregations
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: waterCompartmentSet
Group: colGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Ureaplasma

(ureaplasma). Ureaplasma
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: ureaplasmaGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Ureaplasma

(ureaplasmaGrp). A group of measures/methods related to ureaplasma bacteria. Used to describe the organism information for general measures.
Part Type: groups
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: ureaplasmaGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Micro-Siemens per centimetre

(uSCm). Micro-siemens per centimetre.
Part Type: units
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: waterCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 12
Part Status: active. First released: active. Last updated: 2.0.0.

Coordinated universal time (UTC) zone

(utc). UTC ‚Äö√Ñ√¨ Time zone. Preprogrammed into dictionary tables, not editable by users.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 75
Part Status: active. First released: active. Last updated: 2.1.0.

Coordinated universal time (UTC) zone in daylight savings

(utcDST). Time zone during Daylight Saving Time. Preprogrammed into dictionary tables, not editable by users.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 75
Part Status: active. First released: active. Last updated: 2.1.0.

Utilities sector or organization

(utilities). Describes organization that manage or provide utilities services, whether water, gas, heat, etc.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

V1104L Mutation

(v1104l). The FLiRT/SLip variant mutation V1104L
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: flirtSLipGrp
Class: mutation
Nomenclature: mutation
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

v2930l delta-variant gene target

(v2930l). v2930l delta-variant gene target
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: sarsCov2
Class: mutation
Nomenclature: mutation
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Vacuum sludge sampling

(vac). Intrument type is a grab sampler that takes a sample at a designated depth with minimal disturbance to surrounding layers.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: waterCompartmentSet
Group: colGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.3.

Validation study

(validationStudy). A meaure or sample taken for a validation study.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Value

(value). Value of a measure, observation or attribute. Only used for the dictionary entries of parts.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 15
Part Status: active. First released: active. Last updated: 2.0.0.

VanA-A Vancomycin-resistance gene target

(vanAA). The VanA-A vancomycin anti-microbial resistance gene target.
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: vanAMRGrp
Class: allele
Nomenclature: allele
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: https://www.mediterranee-infection.com/acces-ressources/base-de-donnees/arg-annot-2/
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Vancomycin Anti-microbial resistance Group

(vanAMRGrp). The group for measures and methods pertaining to vancomycin-related anti-microbial resistance.
Part Type: groups
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: vanAMRGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 50
Part Status: active. First released: active. Last updated: 2.1.0.

Vancomycin resistance

(vanc). Vancomycin resistant bacteria.
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: amrGrp
Class: pcr
Nomenclature: pcr
Ontology Reference: NA
Category Set ID: NA
Unit Set: bacteriaUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.1.0.

Variable character data type

(varchar). The data type for variable character data. Measured by sequencing.
Part Type: dataTypes
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: integer
Missingness Set: NA
Minimum Value: 0
Maximum Value: 100
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Frequency of variants detected

(varFreq). A description of the frequency of a variants detected.
Part Type: units
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: variant
Nomenclature: variant
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Variants class

(variant). Measures and methods relating to variants.
Part Type: classes
Domain: bio
Speciment ID: poSaSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: variant
Nomenclature: variant
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Varicella

(varicella). Varicella
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: varicellaGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Varicella Group

(varicellaGrp). A group of measures/methods related to varicella viruses. Used to describe the organism information for general measures.
Part Type: groups
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: varicellaGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Population with 1 dose of vaccine

(vax1). The population with exactly 1 dose of vaccine, with the vaccine specified in the measure field. A unit used for for specifying a population-wide vaccination level measure.
Part Type: units
Domain: naDomain
Speciment ID: poSpecimenSet
Compartment Set: humanCompartmentSet
Group: popGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: integer
Missingness Set: NA
Minimum Value: 0
Maximum Value: NA
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Proportion of population with 1+ vaccine dose(s)

(vax1p). Specifies the portion of the population with 1 or more doses of vaccine, with the vaccine specified in the measure field. A unit used for for specifying a population-wide vaccination level measure.
Part Type: units
Domain: naDomain
Speciment ID: poSpecimenSet
Compartment Set: humanCompartmentSet
Group: popGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: integer
Missingness Set: NA
Minimum Value: 0
Maximum Value: 100
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Population with 1+ dose(s) of vaccine

(vax1plus). The population with 1 or more doses of vaccine, with the vaccine specified in the measure field. A unit used for for specifying a population-wide vaccination level measure.
Part Type: units
Domain: naDomain
Speciment ID: poSpecimenSet
Compartment Set: humanCompartmentSet
Group: popGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: integer
Missingness Set: NA
Minimum Value: 0
Maximum Value: NA
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Population with 2 or more doses of vaccine

(vax2). The population with exactly 2 dose of vaccine, with the vaccine specified in the measure field. A unit used for for specifying a population-wide vaccination level measure.
Part Type: units
Domain: naDomain
Speciment ID: poSpecimenSet
Compartment Set: humanCompartmentSet
Group: popGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: integer
Missingness Set: NA
Minimum Value: 0
Maximum Value: NA
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Proportion of population with 2+ vaccine doses

(vax2p). Specifies the portion of the population with 2 or more doses of vaccine, with the vaccine specified in the measure field. A unit used for for specifying a population-wide vaccination level measure.
Part Type: units
Domain: naDomain
Speciment ID: poSpecimenSet
Compartment Set: humanCompartmentSet
Group: popGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: integer
Missingness Set: NA
Minimum Value: 0
Maximum Value: 100
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Population with 2+ or more doses of vaccine

(vax2plus). The population with 2 or more doses of vaccine, with the vaccine specified in the measure field. A unit used for for specifying a population-wide vaccination level measure.
Part Type: units
Domain: naDomain
Speciment ID: poSpecimenSet
Compartment Set: humanCompartmentSet
Group: popGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: integer
Missingness Set: NA
Minimum Value: 0
Maximum Value: NA
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Population with 3 or more doses of vaccine

(vax3). The population with exactly 3 dose of vaccine, with the vaccine specified in the measure field. A unit used for for specifying a population-wide vaccination level measure.
Part Type: units
Domain: naDomain
Speciment ID: poSpecimenSet
Compartment Set: humanCompartmentSet
Group: popGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: integer
Missingness Set: NA
Minimum Value: 0
Maximum Value: NA
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Proportion of population with 3+ vaccine doses

(vax3p). Specifies the portion of the population with 3 or more doses of vaccine, with the vaccine specified in the measure field. A unit used for for specifying a population-wide vaccination level measure.
Part Type: units
Domain: naDomain
Speciment ID: poSpecimenSet
Compartment Set: humanCompartmentSet
Group: popGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: integer
Missingness Set: NA
Minimum Value: 0
Maximum Value: 100
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Population with 3+ or more doses of vaccine

(vax3plus). The population with 3 or more doses of vaccine, with the vaccine specified in the measure field. A unit used for for specifying a population-wide vaccination level measure.
Part Type: units
Domain: naDomain
Speciment ID: poSpecimenSet
Compartment Set: humanCompartmentSet
Group: popGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: integer
Missingness Set: NA
Minimum Value: 0
Maximum Value: NA
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Population with 4 or more doses of vaccine

(vax4). The population with exactly 4 dose of vaccine, with the vaccine specified in the measure field. A unit used for for specifying a population-wide vaccination level measure.
Part Type: units
Domain: naDomain
Speciment ID: poSpecimenSet
Compartment Set: humanCompartmentSet
Group: popGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: integer
Missingness Set: NA
Minimum Value: 0
Maximum Value: NA
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Proportion of population with 4+ vaccine doses

(vax4p). Specifies the portion of the population with 4 or more doses of vaccine, with the vaccine specified in the measure field. A unit used for for specifying a population-wide vaccination level measure.
Part Type: units
Domain: naDomain
Speciment ID: poSpecimenSet
Compartment Set: humanCompartmentSet
Group: popGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: integer
Missingness Set: NA
Minimum Value: 0
Maximum Value: 100
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Population with 4+ or more doses of vaccine

(vax4plus). The population with 4 or more doses of vaccine, with the vaccine specified in the measure field. A unit used for for specifying a population-wide vaccination level measure.
Part Type: units
Domain: naDomain
Speciment ID: poSpecimenSet
Compartment Set: humanCompartmentSet
Group: popGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: integer
Missingness Set: NA
Minimum Value: 0
Maximum Value: 100
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

ODM V1 location

(version1Location). ODM V1 location
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

ODM V1 table

(version1Table). ODM V1 table
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

ODM version 1 to 2 changes

(version1to2Changes). Changes for part between ODM v1 and V2
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

ODM V1 variable

(version1Variable). ODM V1 variable
Part Type: attributes
Domain: bio
Speciment ID: naSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Vertical grab sampling

(vertGrb). Intrument type is a grab sampler in which the container for the sample is mounted on the end of a rod, which is suitable for collecting waste from a tank.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: waterCompartmentSet
Group: colGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.3.

Vibrio

(vibrio). Vibrio
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: vibrioGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Vibrio Group

(vibrioGrp). A group of measures/methods related to vibrio bacteria. Used to describe the organism information for general measures.
Part Type: groups
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: vibrioGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Miscellaneous viruses group

(virusMisc). A group of measures/methods related to miscellaneous viruses. The miscallenous viruses are often measured for normalization or standardization and have only one measure or method. When a virus has many measures, they will be given their own groupID in updated dictionary versions.
Part Type: groups
Domain: phy
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: virusMisc
Class: physical
Nomenclature: physical
Ontology Reference: NA
Category Set ID: NA
Unit Set: volumeUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: float
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: depreciated. First released: depreciated. Last updated: 2.2.0.

Size in volume

(vol). Total volume of water or sludge sampled. Used for water or air testing
Part Type: measurements
Domain: phy
Speciment ID: saSpecimenSet
Compartment Set: airWaterCompartmentSet
Group: colGrp
Class: physical
Nomenclature: physical
Ontology Reference: NA
Category Set ID: NA
Unit Set: volumeUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Volume proportional sample

(volPr). A volume proportional sample generally collected by an autosampler. The sampling takes the same wastewater volume at variable time intervals, after a defined volume of wastewater has passed the sampling point. This is also called constant volume, variable time (CVVT).
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Volume unit set

(volumeUnitSet). Unit set of volume measurements.
Part Type: unitSets
Domain: che
Speciment ID: siSaSpecimenSet
Compartment Set: waterCompartmentSet
Group: miscMeas
Class: standardConc
Nomenclature: standardConc
Ontology Reference: NA
Category Set ID: NA
Unit Set: stdConcentrationUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Volatile suspended solids

(vss). Volatile suspended solids
Part Type: measurements
Domain: phy
Speciment ID: saSpecimenSet
Compartment Set: waterCompartmentSet
Group: waterQualityGrp
Class: standardConc
Nomenclature: standardConc
Ontology Reference: NA
Category Set ID: NA
Unit Set: stdConcentrationUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Volatile suspended solids - ignition

(vssIg). A water quality measure, captured by via the loss on ignition of the mass of measured total suspended solids. This ignition generally takes place in an oven at a temperature of 550 ¬¨‚àûC to 600 ¬¨‚àûC. It represents the amount of volatile matter present in the solid fraction of the measured solution.
Part Type: measurements
Domain: allDo
Speciment ID: anySpecimenSet
Compartment Set: waterCompartmentSet
Group: measGrp
Class: standardConc
Nomenclature: standardConc
Ontology Reference: NA
Category Set ID: NA
Unit Set: stdConcentrationUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 1
Part Status: active. First released: active. Last updated: 2.0.0.

Vesicular stomatitis virus (VSV) target

(vsv). Vesicular stomatitis virus is used as the recovery efficiency control target.
Part Type: categories
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: procGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

VSV forward primer (ABI)

(vsvABIFor). VSV forward primer (ABI)
Part Type: categories
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: vsvGrp
Class: pcr
Nomenclature: pcr
Ontology Reference: NA
Category Set ID: NA
Unit Set: unitlessUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

VSV probe (ABI)

(vsvABIProbe). VSV probe (ABI)
Part Type: categories
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: vsvGrp
Class: pcr
Nomenclature: pcr
Ontology Reference: NA
Category Set ID: NA
Unit Set: unitlessUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

VSV reverse primer (ABI)

(vsvABIRev). VSV reverse primer (ABI)
Part Type: categories
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: vsvGrp
Class: pcr
Nomenclature: pcr
Ontology Reference: NA
Category Set ID: NA
Unit Set: unitlessUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Vesicular Stomatitis Virus (VSV) Group

(vsvGrp). A group of measures/methods related to Vesicular Stomatitis Virus (VSV). Used to describe the organism information for general measures.
Part Type: groups
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: vsvGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Verotoxin-producing Escherichia coli (VTEC)

(vtec). Verotoxin-producing Escherichia coli (VTEC)
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: ecoliGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Water compartment

(wat). A measure or observation made from a substance in the water, including wastewater.
Part Type: compartments
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: waterCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 15
Part Status: active. First released: active. Last updated: 2.0.0.

water concentrating buffer (R2042-1)

(watConcBuff). water concentrating buffer (R2042-1)
Part Type: categories
Domain: phy
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: procGrp
Class: standardConc
Nomenclature: standardConc
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Water depreciated

(water). Non-wastewater, coming from any kind of water body.
Part Type: categories
Domain: allDo
Speciment ID: anySpecimenSet
Compartment Set: waterCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 15
Part Status: active. First released: active. Last updated: 2.0.0.

Water compartment set

(waterCompartmentSet). A compartment set for measures and methods in the water compartment.
Part Type: compartmentSets
Domain: phy
Speciment ID: siSaSpecimenSet
Compartment Set: waterCompartmentSet
Group: miscMeas
Class: temperature
Nomenclature: temperature
Ontology Reference: NA
Category Set ID: NA
Unit Set: temperatureUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Water Quality Group

(waterQualityGrp). A group of measures/methods related to water quality.
Part Type: groups
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: waterQualityGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Water-based Transit Hub

(waterTH). A transport hub is a place where passengers and cargo are exchanged between water-based vehicles and/or between water-based transport modes. Used when not greater detail can be provided
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: anyCompartmentSet
Group: colGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.3.

Wastewater temperature

(watTemp). Temperature of the wastewater.
Part Type: measurements
Domain: phy
Speciment ID: siSpecimenSet
Compartment Set: waterCompartmentSet
Group: siteFeat
Class: weather
Nomenclature: weather
Ontology Reference: NA
Category Set ID: NA
Unit Set: temperatureUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: float
Missingness Set: genMissingnessSet
Minimum Value: 0
Maximum Value: 40
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Weather

(weath). A measure for weather captured through qualitative categories; part of a larger suite of weather measures that may be useful when collecting samples from outdoor sources.
Part Type: measurements
Domain: phy
Speciment ID: siSpecimenSet
Compartment Set: anyCompartmentSet
Group: siteFeat
Class: weather
Nomenclature: weather
Ontology Reference: NA
Category Set ID: weathSet
Unit Set: unitlessUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: categorical
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Weather class

(weather). Measures and methods relating to weather.
Part Type: classes
Domain: allDo
Speciment ID: siSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: weather
Nomenclature: weather
Ontology Reference: NA
Category Set ID: NA
Unit Set: unitlessUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Weather set

(weathSet). A set of the valid qualitative categories for the qualitative weather measure.
Part Type: mmaSets
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: NA
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

West Nile

(westNile). West Nile
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: flavivirusGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Whole genome sequencing

(wgs). Specifies the whole genome sequencing (WGS) strategy for genetic sequencing
Part Type: categories
Domain: bio
Speciment ID: naSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

WHO nomenclature

(who). Specifies variant or genetic nomenclature as set out by the World Health Organization. If there are multiple issues to flage, use the multiple issues flag and explain the details in the notes section.
Part Type: nomenclatures
Domain: naDomain
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Wide 95% interval

(wI). The 95% interval is too wide, low confidence in results.
Part Type: qualityIndicators
Domain: naDomain
Speciment ID: saSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Specified attribute (wide table)

(wideAttribute). Unique identifier for an attribute in a wide table only.¬¨‚Ä†
Part Type: attributes
Domain: naDomain
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Measure identification (wide table)

(wideMeasure). Unique identifier for a measure in a wide table only.¬¨‚Ä†
Part Type: attributes
Domain: naDomain
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Wide Name

(wideName). Unique identifier for wide table only. Use when all measures are performed on a single sample at the same time and same laboratory. Suggestion: siteID_sampleID_LabID_reportDate_ID.
Part Type: attributes
Domain: naDomain
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Wide name table

(wideNames). The table for wide names.
Part Type: tables
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: lookup
Nomenclature: lookup
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Wide name table order

(wideNamesOrder). Column for indicating the order of the fields in the wide names table.
Part Type: tableSupport
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Wide name table required

(wideNamesRequired). Column for indicating which fields in the wide names table are mandatory.
Part Type: tableSupport
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Wide name type

(wideNameType). The type of wide name generated. Possible options are measure, protocol or attribute.
Part Type: attributes
Domain: naDomain
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Specified protocol (wide table)

(wideProtocol). Unique identifier for a protocol in a wide table only.¬¨‚Ä†
Part Type: attributes
Domain: naDomain
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Wind Speed

(wind). A measure for wind speed; part of a larger suite of weather measures that may be useful when collecting samples from outdoor sources.
Part Type: measurements
Domain: phy
Speciment ID: siSpecimenSet
Compartment Set: airCompartmentSet
Group: siteFeat
Class: speed
Nomenclature: speed
Ontology Reference: NA
Category Set ID: NA
Unit Set: windSpeedUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Wind speed unit set

(windSpeedUnitSet). Unit set for wind speed measurements.
Part Type: unitSets
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: depreciated. First released: depreciated. Last updated: 2.0.0.

Wide name table Shorthand

(wn). The abbreviated short name used to reference the The table for wide names. table
Part Type: shortName
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.2.

Sample stored incorrectly

(wrongStorage). Sample was stored inappropriately.
Part Type: qualityIndicators
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Sample stored at wrong temperature

(wrongTemp). Sample was stored at an inappropriate temperature.
Part Type: qualityIndicators
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

World Sphere (W-SPHERE)

(wSphere). World Sphere header
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

World Sphere (W-SPHERE) notes

(wSphereNotes). W-Shere notes
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: waterCompartmentSet
Group: colGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Delta Variant wt214 gene target

(wt214). Delta Variant wt214 gene target
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: deltaGrp
Class: mutation
Nomenclature: mutation
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Do What The F*ck You Want To Public License { #wtfpl }

(wtfpl). The licensing for the measure or data set is managed under the Do What The Fck You Want To Public License.
Part Type:* categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: https://choosealicense.com/licenses/wtfpl/
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Wastewater treatment plant

(wwtp). A general site type for wastewater treatment plants. Used as a catch-all category for industrial or municipal wastewater treatment plants that carry combined or sanitary sewage, or lagoons.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: waterCompartmentSet
Group: colGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Wastewater treatment plant designed capacity

(wwtpCap). A measure for the designed capacity of a wastewater treatment plant, in terms of how much water it was designed to be able to hold and process.
Part Type: measurements
Domain: phy
Speciment ID: siSpecimenSet
Compartment Set: waterCompartmentSet
Group: colGrp
Class: capacity
Nomenclature: capacity
Ontology Reference: NA
Category Set ID: NA
Unit Set: capacityUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Industrial wastewater treatment plant

(wwtpInd). Industrial wastewater treatment plant
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: waterCompartmentSet
Group: colGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Municipal wastewater treatment plant for combined sewage

(wwtpMuC). Municipal wastewater treatment plant for combined sewage
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: waterCompartmentSet
Group: colGrp
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Municipal wastewater treatment plant for sanitary sewage only

(wwtpMuS). Municipal wastewater treatment plant for sanitary sewage only
Part Type: categories
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: mutation
Nomenclature: mutation
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Relative Centrifugal Force (RCF) or x g units

(xg). RCF (Relative Centrifugal Force) denotes the degree of force exerted on a sample. RCF is quantified in multiples of the gravitational acceleration that is standard at the Earth’s surface (x g). Thus, the terms RCF and XG are often used interchangeably in centrifugation protocols.
Part Type: units
Domain: phy
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

y505h omicron-variant gene target

(y505h). y505h omicron-variant gene target
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: sarsCov2
Class: mutation
Nomenclature: mutation
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

Years

(years). A unit for indicating a length of time in years.
Part Type: units
Domain: allDo
Speciment ID: anySpecimenSet
Compartment Set: anyCompartmentSet
Group: naGroup
Class: time
Nomenclature: time
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: quantAggScale
Quality Set: NA
Reference Link: NA
Data Type: integer
Missingness Set: NA
Minimum Value: 0
Maximum Value: NA
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.0.0.

Yersinia enterocolitica

(yEnterocolitica). Yersinia enterocolitica
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: yersiniaGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

Yersinia Group

(yersiniaGrp). A group of measures/methods related to yersinia bacteria. Used to describe the organism information for general measures.
Part Type: groups
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: yersiniaGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Zika

(zika). Zika
Part Type: measurements
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: flavivirusGrp
Class: organism
Nomenclature: organism
Ontology Reference: NA
Category Set ID: NA
Unit Set: geneticUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: seeUnitData
Missingness Set: genMissingnessSet
Minimum Value: seeUnitVal
Maximum Value: seeUnitVal
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.2.0.

zLib License

(zlib). The licensing for the measure or data set is managed under the zLib License.
Part Type: categories
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: https://choosealicense.com/licenses/zlib/
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

Zones look-up table Shorthand

(zo). The abbreviated short name used to reference the Look up table for the possible sub-national region or zone inputs. table
Part Type: shortName
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.2.

English name of country sub-domains

(zoneName). The english-language name for a given country sub-domain. Preprogrammed into dictionary tables, not editable by users.
Part Type: attributes
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 75
Part Status: active. First released: active. Last updated: 2.1.0.

Zones look-up table

(zones). Look up table for the possible sub-national region or zone inputs.
Part Type: tables
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: lookup
Nomenclature: lookup
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.1.0.

Zones table column order

(zonesOrder). Specifies the order of the columns in the zones table.
Part Type: tableSupport
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: integer
Missingness Set: NA
Minimum Value: 1
Maximum Value: NA
Minimum Length: NA
Maximum Length: NA
Part Status: active. First released: active. Last updated: 2.1.0.

Zones table required headers

(zonesRequired). Required headers in the zones table.
Part Type: tableSupport
Domain: naDomain
Speciment ID: naSpecimenSet
Compartment Set: naCompartmentSet
Group: naGroup
Class: naClass
Nomenclature: naClass
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.1.0.

zymo quick-rna viral kit #r1035

(zymo1035). zymo quick-rna viral kit #r1035
Part Type: categories
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: procGrp
Class: mutation
Nomenclature: mutation
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

zymo quick-rna viral 96 kit #r1041

(zymo1041). zymo quick-rna viral 96 kit #r1041
Part Type: categories
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: procGrp
Class: mutation
Nomenclature: mutation
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.

zymo environ water rna kit/ zymo environ water rna kit (cat. r2042)

(zymoEnv). Nucleic acid extraction performed using the zymo environ water rna kit/ zymo environ water rna kit (cat. r2042).
Part Type: categories
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: procGrp
Class: mutation
Nomenclature: mutation
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

zymo quick-rna fungal/bacterial miniprep #r2014

(zymoQuick). Nucleic acid extraction performed using the zymo quick-rna fungal/bacterial miniprep #r2014 kit.
Part Type: categories
Domain: bio
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: procGrp
Class: mutation
Nomenclature: mutation
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: seeUnitAggScale
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: genMissingnessSet
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.0.0.

zymo environ water rna kit/ zymo environ water rna kit (cat. r2042)

(zymoWatRNA). zymo environ water rna kit (cat. r2042)
Part Type: categories
Domain: phy
Speciment ID: saSpecimenSet
Compartment Set: anyCompartmentSet
Group: procGrp
Class: standardConc
Nomenclature: standardConc
Ontology Reference: NA
Category Set ID: NA
Unit Set: naUnitSet
Aggregation Scale: NA
Quality Set: NA
Reference Link: NA
Data Type: varchar
Missingness Set: NA
Minimum Value: NA
Maximum Value: NA
Minimum Length: 0
Maximum Length: 30
Part Status: active. First released: active. Last updated: 2.2.0.