include-access-model/src/include_access_model/schema/include_access_model.yaml at main · include-dcc/include-access-model · GitHub

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id: https://includedcc.org/include-access-model
name: include-access-model
title: INCLUDE DCC Access Model
description: LinkML Schema for the internal INCLUDE DCC Access Model
license: MIT
see_also:
- https://includedcc.github.io/include-access-model

prefixes:
  includedcc: https://includedcc.org/include-access-model/
 # subset of CDC Race and Ethnicity Code Set Version 1.0
  cdc_race_eth: urn:oid:2.16.840.1.113883.6.238/
  ig_dob_method: https://nih-ncpi.github.io/ncpi-fhir-ig-2/CodeSystem/research-data-date-of-birth-method/
  igcondtype: https://nih-ncpi.github.io/ncpi-fhir-ig-2/CodeSystem/condition-type/
  ig2dac: https://nih-ncpi.github.io/ncpi-fhir-ig-2/CodeSystem/research-data-access-code/
  ig2dat: https://nih-ncpi.github.io/ncpi-fhir-ig-2/CodeSystem/research-data-access-type/
  ig2_biospecimen_availability: https://nih-ncpi.github.io/ncpi-fhir-ig-2/CodeSystem/biospecimen-availability/
  snomed_ct: http://snomed.info/id/
  cam:
    prefix_prefix: cam
    prefix_reference: https://includedcc.org/common-access-model/
  linkml:
    prefix_prefix: linkml
    prefix_reference: https://w3id.org/linkml/
  schema:
    prefix_prefix: schema
    prefix_reference: http://schema.org/
  CDCREC:
    prefix_prefix: CDCREC
    prefix_reference: urn:oid:2.16.840.1.113883.6.238/
  hl7_null:
    prefix_prefix: hl7_null
    prefix_reference: http://terminology.hl7.org/CodeSystem/v3-NullFlavor/
  snomedct:
    prefix_prefix: snomedct
    prefix_reference: http://snomed.info/id/
  MONDO:
    prefix_prefix: MONDO
    prefix_reference: http://purl.obolibrary.org/obo/MONDO_
  HP:
    prefix_prefix: HP
    prefix_reference: http://purl.obolibrary.org/obo/HP_
  mesh:
    prefix_prefix: mesh
    prefix_reference: http://id.nlm.nih.gov/mesh/
  NCIT:
    prefix_prefix: NCIT
    prefix_reference: http://purl.obolibrary.org/obo/NCIT_
  PATO:
    prefix_prefix: PATO
    prefix_reference: http://purl.obolibrary.org/obo/PATO_
  DUO:
    prefix_prefix: DUO
    prefix_reference: http://purl.obolibrary.org/obo/DUO_
  loinc:
    prefix_prefix: loinc
    prefix_reference: https://loinc.org/
  KIN:
    prefix_prefix: KIN
    prefix_reference: http://purl.org/ga4gh/kin.owl#
  edam:
    prefix_prefix: edam
    prefix_reference: http://edamontology.org
  OBI:
    prefix_prefix: OBI
    prefix_reference: http://purl.obolibrary.org/obo/OBI_
  MS:
    prefix_prefix: MS
    prefix_reference: http://purl.obolibrary.org/obo/MS_
  CHMO:
    prefix_prefix: CHMO
    prefix_reference: http://purl.obolibrary.org/obo/CHMO_
  NCBITaxon:
    prefix_prefix: NCBITaxon
    prefix_reference: http://purl.obolibrary.org/obo/NCBITaxon_
  xsd:
    prefix_prefix: xsd
    prefix_reference: http://www.w3.org/2001/XMLSchema#
  shex:
    prefix_prefix: shex
    prefix_reference: http://www.w3.org/ns/shex#

default_prefix: includedcc
default_range: linkml:string

imports:
- upstream-models/common_access_model-0.0.7
classes:
  IncludeParticipant:
    title: INCLUDE Participant
    description: Information specific to INCLUDE participants
    is_a: Demographics
    slots:
    - down_syndrome_status

slots:
  down_syndrome_status:
    title: Down Syndrome Status
    description: Down Syndrome status of participant
    range: EnumDownSyndromeStatus
    required: true

enums:
  EnumDownSyndromeStatus:
    description: Down syndrome / chromosome 21 status
    permissible_values:
      d21:
        title: D21
        description: Disomy 21 (euploid)
        meaning: PATO:0001393
      t21:
        title: T21
        description: Trisomy 21 (Down syndrome)
        meaning: MONDO:0008608