Class: OrganismSampleFlat

name: OrganismSampleFlat
annotations:
  table_name:
    tag: table_name
    value: organism_sample_set
  source_class:
    tag: source_class
    value: OrganismSample
description: A material sample in which all cells are expected to share the same genome.
  This includes microbial colony picks, pellets from presumably pure liquid cultures,
  plant tissue clips, fungal fruiting body sections, and similar materials where the
  submitter intends to study a single organism. The purity expectation may be contradicted
  by sequencing results. Flattened tabular form of 'OrganismSample'. Attributes are
  the union of base-class slots and slots from concrete subclasses of 'OrganismSample'
  that may appear via the 'type' field.
from_schema: https://w3id.org/nmdc/nmdc-schema-flattened
attributes:
  alternative_identifiers:
    name: alternative_identifiers
    description: A list of alternative identifiers for the entity.
    from_schema: https://w3id.org/nmdc/nmdc-schema-flattened
    domain_of:
    - BiosampleFlat
    - CalibrationInformationFlat
    - CollectingBiosamplesFromSiteFlat
    - ConfigurationFlat
    - DataGenerationFlat
    - DataObjectFlat
    - FieldResearchSiteFlat
    - InstrumentFlat
    - ManifestFlat
    - MaterialProcessingFlat
    - OrganismSampleFlat
    - OrganismFlat
    - organism_set_classified_as
    - ProcessedSampleFlat
    - StorageProcessFlat
    - StudyFlat
    - WorkflowExecutionFlat
    - workflow_execution_set_has_metabolite_identifications
    range: uriorcurie
    multivalued: true
  analysis_type:
    name: analysis_type
    description: Select all the data types associated or available for this biosample
    from_schema: https://w3id.org/nmdc/nmdc-schema-flattened
    domain_of:
    - BiosampleFlat
    - OrganismSampleFlat
    - study_set_protocol_link
    range: AnalysisTypeEnum
    multivalued: true
  associated_studies:
    name: associated_studies
    description: The study associated with a resource. Reference by identifier; original
      range was class 'Study'.
    from_schema: https://w3id.org/nmdc/nmdc-schema-flattened
    domain_of:
    - BiosampleFlat
    - biosample_set_associated_studies
    - DataGenerationFlat
    - data_generation_set_associated_studies
    - OrganismSampleFlat
    - organism_sample_set_associated_studies
    range: string
    required: true
    multivalued: true
  collection_date_has_raw_value:
    name: collection_date_has_raw_value
    description: The value that was specified for an annotation in raw form, i.e.
      a string. E.g. "2 cm" or "2-4 cm" Flattened from nested slot 'collection_date.has_raw_value'.
    from_schema: https://w3id.org/nmdc/nmdc-schema-flattened
    domain_of:
    - BiosampleFlat
    - OrganismSampleFlat
    range: string
    required: false
    multivalued: false
  description:
    name: description
    description: a human-readable description of a thing
    from_schema: https://w3id.org/nmdc/nmdc-schema-flattened
    domain_of:
    - BiosampleFlat
    - CalibrationInformationFlat
    - CollectingBiosamplesFromSiteFlat
    - ConfigurationFlat
    - DataGenerationFlat
    - DataObjectFlat
    - FieldResearchSiteFlat
    - InstrumentFlat
    - ManifestFlat
    - MaterialProcessingFlat
    - OrganismSampleFlat
    - OrganismFlat
    - organism_set_classified_as
    - ProcessedSampleFlat
    - StorageProcessFlat
    - StudyFlat
    - study_set_protocol_link
    - study_set_study_image
    - WorkflowExecutionFlat
    range: string
    multivalued: false
  embargoed:
    name: embargoed
    description: If true, the data are embargoed and not available for public access.
    from_schema: https://w3id.org/nmdc/nmdc-schema-flattened
    domain_of:
    - BiosampleFlat
    - OrganismSampleFlat
    range: boolean
    multivalued: false
  expected_organism:
    name: expected_organism
    description: The organism that the submitter expects to be present in this sample.
      May be contradicted by sequencing results. Reference by identifier; original
      range was class 'Organism'.
    from_schema: https://w3id.org/nmdc/nmdc-schema-flattened
    rank: 1000
    domain_of:
    - OrganismSampleFlat
    range: string
    multivalued: false
  external_database_identifiers:
    name: external_database_identifiers
    description: Link to corresponding identifier in external database
    from_schema: https://w3id.org/nmdc/nmdc-schema-flattened
    rank: 1000
    domain_of:
    - OrganismSampleFlat
    - ProcessedSampleFlat
    range: external_identifier
    multivalued: true
  gold_organism_identifiers:
    name: gold_organism_identifiers
    description: identifiers for corresponding organism in GOLD
    from_schema: https://w3id.org/nmdc/nmdc-schema-flattened
    rank: 1000
    domain_of:
    - OrganismSampleFlat
    range: uriorcurie
    multivalued: true
  host_taxid_has_raw_value:
    name: host_taxid_has_raw_value
    description: The value that was specified for an annotation in raw form, i.e.
      a string. E.g. "2 cm" or "2-4 cm" Flattened from nested slot 'host_taxid.has_raw_value'.
    from_schema: https://w3id.org/nmdc/nmdc-schema-flattened
    domain_of:
    - BiosampleFlat
    - OrganismSampleFlat
    range: string
    required: false
    multivalued: false
  host_taxid_term_alternative_identifiers:
    name: host_taxid_term_alternative_identifiers
    description: A list of alternative identifiers for the entity. Flattened from
      nested slot 'host_taxid.term.alternative_identifiers'.
    from_schema: https://w3id.org/nmdc/nmdc-schema-flattened
    domain_of:
    - BiosampleFlat
    - OrganismSampleFlat
    range: uriorcurie
    required: false
    multivalued: true
  host_taxid_term_alternative_names:
    name: host_taxid_term_alternative_names
    description: A list of alternative names used to refer to the entity. The distinction
      between name and alternative names is application-specific.  This should not
      be used for identifers which have their own slots (e.g., bioproject:PRJNA406974)
      Flattened from nested slot 'host_taxid.term.alternative_names'.
    from_schema: https://w3id.org/nmdc/nmdc-schema-flattened
    domain_of:
    - BiosampleFlat
    - OrganismSampleFlat
    range: string
    required: false
    multivalued: true
  host_taxid_term_definition:
    name: host_taxid_term_definition
    description: The definition of the ontology term as provided by the ontology.
      Flattened from nested slot 'host_taxid.term.definition'.
    from_schema: https://w3id.org/nmdc/nmdc-schema-flattened
    domain_of:
    - BiosampleFlat
    - OrganismSampleFlat
    range: string
    required: false
    multivalued: false
  host_taxid_term_description:
    name: host_taxid_term_description
    description: a human-readable description of a thing Flattened from nested slot
      'host_taxid.term.description'.
    from_schema: https://w3id.org/nmdc/nmdc-schema-flattened
    domain_of:
    - BiosampleFlat
    - OrganismSampleFlat
    range: string
    required: false
    multivalued: false
  host_taxid_term_id:
    name: host_taxid_term_id
    description: A unique identifier for a thing. Must be either a CURIE shorthand
      for a URI or a complete URI Flattened from nested slot 'host_taxid.term.id'.
    from_schema: https://w3id.org/nmdc/nmdc-schema-flattened
    domain_of:
    - BiosampleFlat
    - OrganismSampleFlat
    range: uriorcurie
    required: false
    multivalued: false
  host_taxid_term_is_obsolete:
    name: host_taxid_term_is_obsolete
    description: A boolean value indicating whether the ontology term is obsolete.
      Flattened from nested slot 'host_taxid.term.is_obsolete'.
    from_schema: https://w3id.org/nmdc/nmdc-schema-flattened
    domain_of:
    - BiosampleFlat
    - OrganismSampleFlat
    range: boolean
    required: false
    multivalued: false
  host_taxid_term_is_root:
    name: host_taxid_term_is_root
    description: A boolean value indicating whether the ontology term is a root term;
      it is not a subclass of  any other term. Flattened from nested slot 'host_taxid.term.is_root'.
    from_schema: https://w3id.org/nmdc/nmdc-schema-flattened
    domain_of:
    - BiosampleFlat
    - OrganismSampleFlat
    range: boolean
    required: false
    multivalued: false
  host_taxid_term_name:
    name: host_taxid_term_name
    description: A human readable label for an entity Flattened from nested slot 'host_taxid.term.name'.
    from_schema: https://w3id.org/nmdc/nmdc-schema-flattened
    domain_of:
    - BiosampleFlat
    - OrganismSampleFlat
    range: string
    required: false
    multivalued: false
  id:
    name: id
    description: A unique identifier for a thing. Must be either a CURIE shorthand
      for a URI or a complete URI
    from_schema: https://w3id.org/nmdc/nmdc-schema-flattened
    identifier: true
    domain_of:
    - BiosampleFlat
    - CalibrationInformationFlat
    - CollectingBiosamplesFromSiteFlat
    - ConfigurationFlat
    - DataGenerationFlat
    - DataObjectFlat
    - FieldResearchSiteFlat
    - InstrumentFlat
    - ManifestFlat
    - MaterialProcessingFlat
    - OrganismSampleFlat
    - OrganismFlat
    - organism_set_classified_as
    - ProcessedSampleFlat
    - StorageProcessFlat
    - StudyFlat
    - WorkflowExecutionFlat
    range: uriorcurie
    required: true
    multivalued: false
  name:
    name: name
    description: A human readable label for an entity
    from_schema: https://w3id.org/nmdc/nmdc-schema-flattened
    domain_of:
    - BiosampleFlat
    - CalibrationInformationFlat
    - CollectingBiosamplesFromSiteFlat
    - ConfigurationFlat
    - DataGenerationFlat
    - DataObjectFlat
    - FieldResearchSiteFlat
    - InstrumentFlat
    - ManifestFlat
    - MaterialProcessingFlat
    - OrganismSampleFlat
    - OrganismFlat
    - organism_set_classified_as
    - ProcessedSampleFlat
    - StorageProcessFlat
    - StudyFlat
    - study_set_protocol_link
    - WorkflowExecutionFlat
    range: string
    multivalued: false
  ploidy:
    name: ploidy
    description: The ploidy level of the genome (e.g. allopolyploid, haploid, diploid,
      triploid, tetraploid). It has implications for the downstream study of duplicated
      gene and regions of the genomes (and perhaps for difficulties in assembly).
      For terms, please select terms listed under class ploidy (PATO:001374) of Phenotypic
      Quality Ontology (PATO), and for a browser of PATO (v 2018-03-27) please refer
      to http://purl.bioontology.org/ontology/PATO
    from_schema: https://w3id.org/nmdc/nmdc-schema-flattened
    rank: 1000
    domain_of:
    - OrganismSampleFlat
    range: PloidyEnum
    multivalued: false
  provenance_metadata_add_date:
    name: provenance_metadata_add_date
    description: The date and time at which a record was added to the NMDC database.
      Flattened from nested slot 'provenance_metadata.add_date'.
    from_schema: https://w3id.org/nmdc/nmdc-schema-flattened
    domain_of:
    - BiosampleFlat
    - DataGenerationFlat
    - OrganismSampleFlat
    - StudyFlat
    range: datetime
    required: false
    multivalued: false
  provenance_metadata_git_url:
    name: provenance_metadata_git_url
    description: The url of the software repository used to generate the NMDC metadata
      record Flattened from nested slot 'provenance_metadata.git_url'.
    from_schema: https://w3id.org/nmdc/nmdc-schema-flattened
    domain_of:
    - BiosampleFlat
    - DataGenerationFlat
    - OrganismSampleFlat
    - StudyFlat
    range: string
    required: false
    multivalued: false
  provenance_metadata_mod_date:
    name: provenance_metadata_mod_date
    description: The date and time at which a record was last modified in the NMDC
      database. Flattened from nested slot 'provenance_metadata.mod_date'.
    from_schema: https://w3id.org/nmdc/nmdc-schema-flattened
    domain_of:
    - BiosampleFlat
    - DataGenerationFlat
    - OrganismSampleFlat
    - StudyFlat
    range: datetime
    required: false
    multivalued: false
  provenance_metadata_source_system_of_record:
    name: provenance_metadata_source_system_of_record
    description: Identifies the system of origin for a record Flattened from nested
      slot 'provenance_metadata.source_system_of_record'.
    from_schema: https://w3id.org/nmdc/nmdc-schema-flattened
    domain_of:
    - BiosampleFlat
    - DataGenerationFlat
    - OrganismSampleFlat
    - StudyFlat
    range: SourceSystemEnum
    required: false
    multivalued: false
  provenance_metadata_submission_portal_identifier:
    name: provenance_metadata_submission_portal_identifier
    description: The UUID of the NMDC Submission Portal entry that generated this
      record. Flattened from nested slot 'provenance_metadata.submission_portal_identifier'.
    from_schema: https://w3id.org/nmdc/nmdc-schema-flattened
    domain_of:
    - BiosampleFlat
    - DataGenerationFlat
    - OrganismSampleFlat
    - StudyFlat
    range: string
    required: false
    multivalued: true
  provenance_metadata_version:
    name: provenance_metadata_version
    description: The version tag of the software used to generate the NMDC metadata
      record Flattened from nested slot 'provenance_metadata.version'.
    from_schema: https://w3id.org/nmdc/nmdc-schema-flattened
    domain_of:
    - BiosampleFlat
    - DataGenerationFlat
    - OrganismSampleFlat
    - StudyFlat
    range: string
    required: false
    multivalued: false
  samp_name:
    name: samp_name
    description: A local identifier or name that for the material sample used for
      extracting nucleic acids, and subsequent sequencing. It can refer either to
      the original material collected or to any derived sub-samples. It can have any
      format, but we suggest that you make it concise, unique and consistent within
      your lab, and as informative as possible. INSDC requires every sample name from
      a single Submitter to be unique. Use of a globally unique identifier for the
      field source_mat_id is recommended in addition to sample_name
    from_schema: https://w3id.org/nmdc/nmdc-schema-flattened
    domain_of:
    - BiosampleFlat
    - OrganismSampleFlat
    range: string
    multivalued: false
  source_mat_id_has_raw_value:
    name: source_mat_id_has_raw_value
    description: The value that was specified for an annotation in raw form, i.e.
      a string. E.g. "2 cm" or "2-4 cm" Flattened from nested slot 'source_mat_id.has_raw_value'.
    from_schema: https://w3id.org/nmdc/nmdc-schema-flattened
    domain_of:
    - BiosampleFlat
    - OrganismSampleFlat
    range: string
    required: false
    multivalued: false
  source_mat_id_language:
    name: source_mat_id_language
    description: Should use ISO 639-1 code e.g. "en", "fr" Flattened from nested slot
      'source_mat_id.language'.
    from_schema: https://w3id.org/nmdc/nmdc-schema-flattened
    domain_of:
    - BiosampleFlat
    - OrganismSampleFlat
    range: language_code
    required: false
    multivalued: false
  type:
    name: type
    description: the class_uri of the class that has been instantiated
    from_schema: https://w3id.org/nmdc/nmdc-schema-flattened
    domain_of:
    - BiosampleFlat
    - biosample_set_agrochem_addition
    - biosample_set_air_temp_regm
    - biosample_set_antibiotic_regm
    - biosample_set_atmospheric_data
    - biosample_set_biomass
    - biosample_set_chem_administration
    - biosample_set_chem_mutagen
    - biosample_set_climate_environment
    - biosample_set_diether_lipids
    - biosample_set_emulsions
    - biosample_set_fertilizer_regm
    - biosample_set_fungicide_regm
    - biosample_set_gaseous_environment
    - biosample_set_gaseous_substances
    - biosample_set_gravity
    - biosample_set_growth_hormone_regm
    - biosample_set_heavy_metals
    - biosample_set_herbicide_regm
    - biosample_set_host_diet
    - biosample_set_humidity_regm
    - biosample_set_inorg_particles
    - biosample_set_mineral_nutr_regm
    - biosample_set_misc_param
    - biosample_set_n_alkanes
    - biosample_set_org_particles
    - biosample_set_organism_count
    - biosample_set_particle_class
    - biosample_set_perturbation
    - biosample_set_pesticide_regm
    - biosample_set_ph_regm
    - biosample_set_phaeopigments
    - biosample_set_phosplipid_fatt_acid
    - biosample_set_pollutants
    - biosample_set_radiation_regm
    - biosample_set_rainfall_regm
    - biosample_set_salt_regm
    - biosample_set_season_environment
    - biosample_set_soluble_inorg_mat
    - biosample_set_soluble_org_mat
    - biosample_set_standing_water_regm
    - biosample_set_suspend_solids
    - biosample_set_volatile_org_comp
    - biosample_set_water_temp_regm
    - biosample_set_watering_regm
    - CalibrationInformationFlat
    - CollectingBiosamplesFromSiteFlat
    - collecting_biosamples_from_site_set_has_failure_categorization
    - ConfigurationFlat
    - configuration_set_ordered_mobile_phases
    - DataGenerationFlat
    - data_generation_set_has_failure_categorization
    - DataObjectFlat
    - FieldResearchSiteFlat
    - FunctionalAnnotationAggMemberFlat
    - FunctionalAnnotationFlat
    - GenomeFeatureFlat
    - InstrumentFlat
    - ManifestFlat
    - MaterialProcessingFlat
    - material_processing_set_has_failure_categorization
    - material_processing_set_ordered_mobile_phases
    - material_processing_set_substances_used
    - OrganismSampleFlat
    - OrganismFlat
    - organism_set_classified_as
    - ProcessedSampleFlat
    - StorageProcessFlat
    - storage_process_set_has_failure_categorization
    - storage_process_set_substances_used
    - StudyFlat
    - study_set_associated_dois
    - study_set_has_credit_associations
    - study_set_protocol_link
    - study_set_study_image
    - WorkflowExecutionFlat
    - workflow_execution_set_has_failure_categorization
    - workflow_execution_set_has_metabolite_identifications
    - workflow_execution_set_mags_list
    range: uriorcurie
    required: true
    multivalued: false

name: OrganismSampleFlat
annotations:
  table_name:
    tag: table_name
    value: organism_sample_set
  source_class:
    tag: source_class
    value: OrganismSample
description: A material sample in which all cells are expected to share the same genome.
  This includes microbial colony picks, pellets from presumably pure liquid cultures,
  plant tissue clips, fungal fruiting body sections, and similar materials where the
  submitter intends to study a single organism. The purity expectation may be contradicted
  by sequencing results. Flattened tabular form of 'OrganismSample'. Attributes are
  the union of base-class slots and slots from concrete subclasses of 'OrganismSample'
  that may appear via the 'type' field.
from_schema: https://w3id.org/nmdc/nmdc-schema-flattened
attributes:
  alternative_identifiers:
    name: alternative_identifiers
    description: A list of alternative identifiers for the entity.
    from_schema: https://w3id.org/nmdc/nmdc-schema-flattened
    owner: OrganismSampleFlat
    domain_of:
    - BiosampleFlat
    - CalibrationInformationFlat
    - CollectingBiosamplesFromSiteFlat
    - ConfigurationFlat
    - DataGenerationFlat
    - DataObjectFlat
    - FieldResearchSiteFlat
    - InstrumentFlat
    - ManifestFlat
    - MaterialProcessingFlat
    - OrganismSampleFlat
    - OrganismFlat
    - organism_set_classified_as
    - ProcessedSampleFlat
    - StorageProcessFlat
    - StudyFlat
    - WorkflowExecutionFlat
    - workflow_execution_set_has_metabolite_identifications
    range: uriorcurie
    multivalued: true
  analysis_type:
    name: analysis_type
    description: Select all the data types associated or available for this biosample
    from_schema: https://w3id.org/nmdc/nmdc-schema-flattened
    owner: OrganismSampleFlat
    domain_of:
    - BiosampleFlat
    - OrganismSampleFlat
    - study_set_protocol_link
    range: AnalysisTypeEnum
    multivalued: true
  associated_studies:
    name: associated_studies
    description: The study associated with a resource. Reference by identifier; original
      range was class 'Study'.
    from_schema: https://w3id.org/nmdc/nmdc-schema-flattened
    owner: OrganismSampleFlat
    domain_of:
    - BiosampleFlat
    - biosample_set_associated_studies
    - DataGenerationFlat
    - data_generation_set_associated_studies
    - OrganismSampleFlat
    - organism_sample_set_associated_studies
    range: string
    required: true
    multivalued: true
  collection_date_has_raw_value:
    name: collection_date_has_raw_value
    description: The value that was specified for an annotation in raw form, i.e.
      a string. E.g. "2 cm" or "2-4 cm" Flattened from nested slot 'collection_date.has_raw_value'.
    from_schema: https://w3id.org/nmdc/nmdc-schema-flattened
    owner: OrganismSampleFlat
    domain_of:
    - BiosampleFlat
    - OrganismSampleFlat
    range: string
    required: false
    multivalued: false
  description:
    name: description
    description: a human-readable description of a thing
    from_schema: https://w3id.org/nmdc/nmdc-schema-flattened
    owner: OrganismSampleFlat
    domain_of:
    - BiosampleFlat
    - CalibrationInformationFlat
    - CollectingBiosamplesFromSiteFlat
    - ConfigurationFlat
    - DataGenerationFlat
    - DataObjectFlat
    - FieldResearchSiteFlat
    - InstrumentFlat
    - ManifestFlat
    - MaterialProcessingFlat
    - OrganismSampleFlat
    - OrganismFlat
    - organism_set_classified_as
    - ProcessedSampleFlat
    - StorageProcessFlat
    - StudyFlat
    - study_set_protocol_link
    - study_set_study_image
    - WorkflowExecutionFlat
    range: string
    multivalued: false
  embargoed:
    name: embargoed
    description: If true, the data are embargoed and not available for public access.
    from_schema: https://w3id.org/nmdc/nmdc-schema-flattened
    owner: OrganismSampleFlat
    domain_of:
    - BiosampleFlat
    - OrganismSampleFlat
    range: boolean
    multivalued: false
  expected_organism:
    name: expected_organism
    description: The organism that the submitter expects to be present in this sample.
      May be contradicted by sequencing results. Reference by identifier; original
      range was class 'Organism'.
    from_schema: https://w3id.org/nmdc/nmdc-schema-flattened
    rank: 1000
    owner: OrganismSampleFlat
    domain_of:
    - OrganismSampleFlat
    range: string
    multivalued: false
  external_database_identifiers:
    name: external_database_identifiers
    description: Link to corresponding identifier in external database
    from_schema: https://w3id.org/nmdc/nmdc-schema-flattened
    rank: 1000
    owner: OrganismSampleFlat
    domain_of:
    - OrganismSampleFlat
    - ProcessedSampleFlat
    range: external_identifier
    multivalued: true
  gold_organism_identifiers:
    name: gold_organism_identifiers
    description: identifiers for corresponding organism in GOLD
    from_schema: https://w3id.org/nmdc/nmdc-schema-flattened
    rank: 1000
    owner: OrganismSampleFlat
    domain_of:
    - OrganismSampleFlat
    range: uriorcurie
    multivalued: true
  host_taxid_has_raw_value:
    name: host_taxid_has_raw_value
    description: The value that was specified for an annotation in raw form, i.e.
      a string. E.g. "2 cm" or "2-4 cm" Flattened from nested slot 'host_taxid.has_raw_value'.
    from_schema: https://w3id.org/nmdc/nmdc-schema-flattened
    owner: OrganismSampleFlat
    domain_of:
    - BiosampleFlat
    - OrganismSampleFlat
    range: string
    required: false
    multivalued: false
  host_taxid_term_alternative_identifiers:
    name: host_taxid_term_alternative_identifiers
    description: A list of alternative identifiers for the entity. Flattened from
      nested slot 'host_taxid.term.alternative_identifiers'.
    from_schema: https://w3id.org/nmdc/nmdc-schema-flattened
    owner: OrganismSampleFlat
    domain_of:
    - BiosampleFlat
    - OrganismSampleFlat
    range: uriorcurie
    required: false
    multivalued: true
  host_taxid_term_alternative_names:
    name: host_taxid_term_alternative_names
    description: A list of alternative names used to refer to the entity. The distinction
      between name and alternative names is application-specific.  This should not
      be used for identifers which have their own slots (e.g., bioproject:PRJNA406974)
      Flattened from nested slot 'host_taxid.term.alternative_names'.
    from_schema: https://w3id.org/nmdc/nmdc-schema-flattened
    owner: OrganismSampleFlat
    domain_of:
    - BiosampleFlat
    - OrganismSampleFlat
    range: string
    required: false
    multivalued: true
  host_taxid_term_definition:
    name: host_taxid_term_definition
    description: The definition of the ontology term as provided by the ontology.
      Flattened from nested slot 'host_taxid.term.definition'.
    from_schema: https://w3id.org/nmdc/nmdc-schema-flattened
    owner: OrganismSampleFlat
    domain_of:
    - BiosampleFlat
    - OrganismSampleFlat
    range: string
    required: false
    multivalued: false
  host_taxid_term_description:
    name: host_taxid_term_description
    description: a human-readable description of a thing Flattened from nested slot
      'host_taxid.term.description'.
    from_schema: https://w3id.org/nmdc/nmdc-schema-flattened
    owner: OrganismSampleFlat
    domain_of:
    - BiosampleFlat
    - OrganismSampleFlat
    range: string
    required: false
    multivalued: false
  host_taxid_term_id:
    name: host_taxid_term_id
    description: A unique identifier for a thing. Must be either a CURIE shorthand
      for a URI or a complete URI Flattened from nested slot 'host_taxid.term.id'.
    from_schema: https://w3id.org/nmdc/nmdc-schema-flattened
    owner: OrganismSampleFlat
    domain_of:
    - BiosampleFlat
    - OrganismSampleFlat
    range: uriorcurie
    required: false
    multivalued: false
  host_taxid_term_is_obsolete:
    name: host_taxid_term_is_obsolete
    description: A boolean value indicating whether the ontology term is obsolete.
      Flattened from nested slot 'host_taxid.term.is_obsolete'.
    from_schema: https://w3id.org/nmdc/nmdc-schema-flattened
    owner: OrganismSampleFlat
    domain_of:
    - BiosampleFlat
    - OrganismSampleFlat
    range: boolean
    required: false
    multivalued: false
  host_taxid_term_is_root:
    name: host_taxid_term_is_root
    description: A boolean value indicating whether the ontology term is a root term;
      it is not a subclass of  any other term. Flattened from nested slot 'host_taxid.term.is_root'.
    from_schema: https://w3id.org/nmdc/nmdc-schema-flattened
    owner: OrganismSampleFlat
    domain_of:
    - BiosampleFlat
    - OrganismSampleFlat
    range: boolean
    required: false
    multivalued: false
  host_taxid_term_name:
    name: host_taxid_term_name
    description: A human readable label for an entity Flattened from nested slot 'host_taxid.term.name'.
    from_schema: https://w3id.org/nmdc/nmdc-schema-flattened
    owner: OrganismSampleFlat
    domain_of:
    - BiosampleFlat
    - OrganismSampleFlat
    range: string
    required: false
    multivalued: false
  id:
    name: id
    description: A unique identifier for a thing. Must be either a CURIE shorthand
      for a URI or a complete URI
    from_schema: https://w3id.org/nmdc/nmdc-schema-flattened
    identifier: true
    owner: OrganismSampleFlat
    domain_of:
    - BiosampleFlat
    - CalibrationInformationFlat
    - CollectingBiosamplesFromSiteFlat
    - ConfigurationFlat
    - DataGenerationFlat
    - DataObjectFlat
    - FieldResearchSiteFlat
    - InstrumentFlat
    - ManifestFlat
    - MaterialProcessingFlat
    - OrganismSampleFlat
    - OrganismFlat
    - organism_set_classified_as
    - ProcessedSampleFlat
    - StorageProcessFlat
    - StudyFlat
    - WorkflowExecutionFlat
    range: uriorcurie
    required: true
    multivalued: false
  name:
    name: name
    description: A human readable label for an entity
    from_schema: https://w3id.org/nmdc/nmdc-schema-flattened
    owner: OrganismSampleFlat
    domain_of:
    - BiosampleFlat
    - CalibrationInformationFlat
    - CollectingBiosamplesFromSiteFlat
    - ConfigurationFlat
    - DataGenerationFlat
    - DataObjectFlat
    - FieldResearchSiteFlat
    - InstrumentFlat
    - ManifestFlat
    - MaterialProcessingFlat
    - OrganismSampleFlat
    - OrganismFlat
    - organism_set_classified_as
    - ProcessedSampleFlat
    - StorageProcessFlat
    - StudyFlat
    - study_set_protocol_link
    - WorkflowExecutionFlat
    range: string
    multivalued: false
  ploidy:
    name: ploidy
    description: The ploidy level of the genome (e.g. allopolyploid, haploid, diploid,
      triploid, tetraploid). It has implications for the downstream study of duplicated
      gene and regions of the genomes (and perhaps for difficulties in assembly).
      For terms, please select terms listed under class ploidy (PATO:001374) of Phenotypic
      Quality Ontology (PATO), and for a browser of PATO (v 2018-03-27) please refer
      to http://purl.bioontology.org/ontology/PATO
    from_schema: https://w3id.org/nmdc/nmdc-schema-flattened
    rank: 1000
    owner: OrganismSampleFlat
    domain_of:
    - OrganismSampleFlat
    range: PloidyEnum
    multivalued: false
  provenance_metadata_add_date:
    name: provenance_metadata_add_date
    description: The date and time at which a record was added to the NMDC database.
      Flattened from nested slot 'provenance_metadata.add_date'.
    from_schema: https://w3id.org/nmdc/nmdc-schema-flattened
    owner: OrganismSampleFlat
    domain_of:
    - BiosampleFlat
    - DataGenerationFlat
    - OrganismSampleFlat
    - StudyFlat
    range: datetime
    required: false
    multivalued: false
  provenance_metadata_git_url:
    name: provenance_metadata_git_url
    description: The url of the software repository used to generate the NMDC metadata
      record Flattened from nested slot 'provenance_metadata.git_url'.
    from_schema: https://w3id.org/nmdc/nmdc-schema-flattened
    owner: OrganismSampleFlat
    domain_of:
    - BiosampleFlat
    - DataGenerationFlat
    - OrganismSampleFlat
    - StudyFlat
    range: string
    required: false
    multivalued: false
  provenance_metadata_mod_date:
    name: provenance_metadata_mod_date
    description: The date and time at which a record was last modified in the NMDC
      database. Flattened from nested slot 'provenance_metadata.mod_date'.
    from_schema: https://w3id.org/nmdc/nmdc-schema-flattened
    owner: OrganismSampleFlat
    domain_of:
    - BiosampleFlat
    - DataGenerationFlat
    - OrganismSampleFlat
    - StudyFlat
    range: datetime
    required: false
    multivalued: false
  provenance_metadata_source_system_of_record:
    name: provenance_metadata_source_system_of_record
    description: Identifies the system of origin for a record Flattened from nested
      slot 'provenance_metadata.source_system_of_record'.
    from_schema: https://w3id.org/nmdc/nmdc-schema-flattened
    owner: OrganismSampleFlat
    domain_of:
    - BiosampleFlat
    - DataGenerationFlat
    - OrganismSampleFlat
    - StudyFlat
    range: SourceSystemEnum
    required: false
    multivalued: false
  provenance_metadata_submission_portal_identifier:
    name: provenance_metadata_submission_portal_identifier
    description: The UUID of the NMDC Submission Portal entry that generated this
      record. Flattened from nested slot 'provenance_metadata.submission_portal_identifier'.
    from_schema: https://w3id.org/nmdc/nmdc-schema-flattened
    owner: OrganismSampleFlat
    domain_of:
    - BiosampleFlat
    - DataGenerationFlat
    - OrganismSampleFlat
    - StudyFlat
    range: string
    required: false
    multivalued: true
  provenance_metadata_version:
    name: provenance_metadata_version
    description: The version tag of the software used to generate the NMDC metadata
      record Flattened from nested slot 'provenance_metadata.version'.
    from_schema: https://w3id.org/nmdc/nmdc-schema-flattened
    owner: OrganismSampleFlat
    domain_of:
    - BiosampleFlat
    - DataGenerationFlat
    - OrganismSampleFlat
    - StudyFlat
    range: string
    required: false
    multivalued: false
  samp_name:
    name: samp_name
    description: A local identifier or name that for the material sample used for
      extracting nucleic acids, and subsequent sequencing. It can refer either to
      the original material collected or to any derived sub-samples. It can have any
      format, but we suggest that you make it concise, unique and consistent within
      your lab, and as informative as possible. INSDC requires every sample name from
      a single Submitter to be unique. Use of a globally unique identifier for the
      field source_mat_id is recommended in addition to sample_name
    from_schema: https://w3id.org/nmdc/nmdc-schema-flattened
    owner: OrganismSampleFlat
    domain_of:
    - BiosampleFlat
    - OrganismSampleFlat
    range: string
    multivalued: false
  source_mat_id_has_raw_value:
    name: source_mat_id_has_raw_value
    description: The value that was specified for an annotation in raw form, i.e.
      a string. E.g. "2 cm" or "2-4 cm" Flattened from nested slot 'source_mat_id.has_raw_value'.
    from_schema: https://w3id.org/nmdc/nmdc-schema-flattened
    owner: OrganismSampleFlat
    domain_of:
    - BiosampleFlat
    - OrganismSampleFlat
    range: string
    required: false
    multivalued: false
  source_mat_id_language:
    name: source_mat_id_language
    description: Should use ISO 639-1 code e.g. "en", "fr" Flattened from nested slot
      'source_mat_id.language'.
    from_schema: https://w3id.org/nmdc/nmdc-schema-flattened
    owner: OrganismSampleFlat
    domain_of:
    - BiosampleFlat
    - OrganismSampleFlat
    range: language_code
    required: false
    multivalued: false
  type:
    name: type
    description: the class_uri of the class that has been instantiated
    from_schema: https://w3id.org/nmdc/nmdc-schema-flattened
    owner: OrganismSampleFlat
    domain_of:
    - BiosampleFlat
    - biosample_set_agrochem_addition
    - biosample_set_air_temp_regm
    - biosample_set_antibiotic_regm
    - biosample_set_atmospheric_data
    - biosample_set_biomass
    - biosample_set_chem_administration
    - biosample_set_chem_mutagen
    - biosample_set_climate_environment
    - biosample_set_diether_lipids
    - biosample_set_emulsions
    - biosample_set_fertilizer_regm
    - biosample_set_fungicide_regm
    - biosample_set_gaseous_environment
    - biosample_set_gaseous_substances
    - biosample_set_gravity
    - biosample_set_growth_hormone_regm
    - biosample_set_heavy_metals
    - biosample_set_herbicide_regm
    - biosample_set_host_diet
    - biosample_set_humidity_regm
    - biosample_set_inorg_particles
    - biosample_set_mineral_nutr_regm
    - biosample_set_misc_param
    - biosample_set_n_alkanes
    - biosample_set_org_particles
    - biosample_set_organism_count
    - biosample_set_particle_class
    - biosample_set_perturbation
    - biosample_set_pesticide_regm
    - biosample_set_ph_regm
    - biosample_set_phaeopigments
    - biosample_set_phosplipid_fatt_acid
    - biosample_set_pollutants
    - biosample_set_radiation_regm
    - biosample_set_rainfall_regm
    - biosample_set_salt_regm
    - biosample_set_season_environment
    - biosample_set_soluble_inorg_mat
    - biosample_set_soluble_org_mat
    - biosample_set_standing_water_regm
    - biosample_set_suspend_solids
    - biosample_set_volatile_org_comp
    - biosample_set_water_temp_regm
    - biosample_set_watering_regm
    - CalibrationInformationFlat
    - CollectingBiosamplesFromSiteFlat
    - collecting_biosamples_from_site_set_has_failure_categorization
    - ConfigurationFlat
    - configuration_set_ordered_mobile_phases
    - DataGenerationFlat
    - data_generation_set_has_failure_categorization
    - DataObjectFlat
    - FieldResearchSiteFlat
    - FunctionalAnnotationAggMemberFlat
    - FunctionalAnnotationFlat
    - GenomeFeatureFlat
    - InstrumentFlat
    - ManifestFlat
    - MaterialProcessingFlat
    - material_processing_set_has_failure_categorization
    - material_processing_set_ordered_mobile_phases
    - material_processing_set_substances_used
    - OrganismSampleFlat
    - OrganismFlat
    - organism_set_classified_as
    - ProcessedSampleFlat
    - StorageProcessFlat
    - storage_process_set_has_failure_categorization
    - storage_process_set_substances_used
    - StudyFlat
    - study_set_associated_dois
    - study_set_has_credit_associations
    - study_set_protocol_link
    - study_set_study_image
    - WorkflowExecutionFlat
    - workflow_execution_set_has_failure_categorization
    - workflow_execution_set_has_metabolite_identifications
    - workflow_execution_set_mags_list
    range: uriorcurie
    required: true
    multivalued: false