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Term: organism count (organism_count)

Total cell count of any organism (or group of organisms) per gram, volume or area of sample, should include name of organism followed by count. The method that was used for the enumeration (e.g. qPCR, atp, mpn, etc.) Should also be provided. (example: total prokaryotes; 3.5e7 cells per ml; qpcr)

URI: MIXS:0000103

Applicable Checklists and Extensions

NOTE: does not include Combinations (of checklists and extensions) that use organism_count.

Name Description Checklist/Extension
HumanOral A collection of terms appropriate when collecting samples and sequencing samp... Extension
Agriculture A collection of terms appropriate when sequencing samples obtained in an agri... Extension
FoodAnimalAndAnimalFeed A collection of terms appropriate when collecting samples and performing sequ... Extension
WastewaterSludge A collection of terms appropriate when collecting samples and sequencing samp... Extension
HydrocarbonResourcesCores A collection of terms appropriate when collecting samples and sequencing samp... Extension
SymbiontAssociated A collection of terms appropriate when collecting samples and sequencing samp... Extension
FoodFarmEnvironment A collection of terms appropriate when collecting samples and performing sequ... Extension
HostAssociated A collection of terms appropriate when collecting samples and sequencing samp... Extension
FoodHumanFoods A collection of terms appropriate when collecting samples and performing sequ... Extension
HumanAssociated A collection of terms appropriate when collecting samples and sequencing samp... Extension
BuiltEnvironment A collection of terms appropriate when collecting samples and sequencing samp... Extension
Water A collection of terms appropriate when collecting samples and sequencing wate... Extension
HumanGut A collection of terms appropriate when collecting samples and sequencing samp... Extension
HumanVaginal A collection of terms appropriate when collecting samples and sequencing samp... Extension
PlantAssociated A collection of terms appropriate when collecting samples and sequencing samp... Extension
HydrocarbonResourcesFluidsSwabs A collection of terms appropriate when collecting samples and sequencing samp... Extension
MicrobialMatBiofilm A collection of terms appropriate when collecting samples and sequencing samp... Extension
MiscellaneousNaturalOrArtificialEnvironment A collection of generic terms appropriate when collecting and sequencing samp... Extension
Sediment A collection of terms appropriate when collecting samples and sequencing samp... Extension
Air A collection of terms appropriate when collecting and sequencing samples obta... Extension
HumanSkin A collection of terms appropriate when collecting samples and sequencing samp... Extension
FoodFoodProductionFacility A collection of terms appropriate when collecting samples and performing sequ... Extension

Properties

  • Range: String
  • Cardinality: *

Annotations

  • Expected_value: organism name;measurement value;enumeration

LinkML Source

name: organism_count
annotations:
  Expected_value:
    tag: Expected_value
    value: organism name;measurement value;enumeration
description: 'Total cell count of any organism (or group of organisms) per gram, volume
  or area of sample, should include name of organism followed by count. The method
  that was used for the enumeration (e.g. qPCR, atp, mpn, etc.) Should also be provided.
  (example: total prokaryotes; 3.5e7 cells per ml; qpcr)'
title: organism count
from_schema: https://w3id.org/mixs
keywords:
- count
- organism
string_serialization: '{text};{float} {unit};[ATP|MPN|qPCR|other]'
slot_uri: MIXS:0000103
multivalued: true
alias: organism_count
domain_of:
- Agriculture
- Air
- BuiltEnvironment
- FoodAnimalAndAnimalFeed
- FoodFarmEnvironment
- FoodFoodProductionFacility
- FoodHumanFoods
- HostAssociated
- HumanAssociated
- HumanGut
- HumanOral
- HumanSkin
- HumanVaginal
- HydrocarbonResourcesCores
- HydrocarbonResourcesFluidsSwabs
- MicrobialMatBiofilm
- MiscellaneousNaturalOrArtificialEnvironment
- PlantAssociated
- Sediment
- SymbiontAssociated
- WastewaterSludge
- Water
range: string