code_systems:
# Codesystems that encode elements and value set items
- id: SNOMEDCT
  namespace_iri: http://purl.bioontology.org/ontology/SNOMEDCT/
  version:    "2025AB"
  title:      "Systematized Nomenclature of Medicine – Clinical Terms (SNOMED CT)"

- id: LOINC
  namespace_iri: http://loinc.org
  version:    "281"
  title:      "Logical Observation Identifiers Names and Codes (LOINC)"

- id: HP
  namespace_iri: http://purl.obolibrary.org/obo/HP
  version:    "2026-02-16"
  title:      "Human Phenotype Ontology (HPO)"

- id: NCIT
  namespace_iri: http://purl.obolibrary.org/obo/NCIT/
  version:    "26.02d"
  title:      "NCI Thesaurus (NCIT) OBO Edition"

- id: HL7FHIR
  namespace_iri: http://hl7.org/fhir/
  version:    "v4.0.1"
  title:      "Health Level Seven Fast Healthcare Interoperability Resources, Release 4"

- id: GA4GH
  namespace_iri: https://ga4gh.github.io/phenopacket-v2/
  version:    "v2.0"
  title:      "Global Alliance for Genomics and Health Phenopackets Schema"

- id: CustomCode
  namespace_iri: https://github.com/BIH-CEI/rd-cdm
  version:    "v2.0"
  title:      "Custom Code System RD CDM v2.0"

# Codesystems that can encode values of data elements
- id: NCBITAXON
  namespace_iri: http://purl.obolibrary.org/obo/NCBITAXON/
  version:    "2025_04_10"
  title:      "NCBI organismal classification"

- id: GENO
  namespace_iri: http://purl.obolibrary.org/obo/GENO/
  version:    "2026-02-02"
  title:      "GENO – The Genotype Ontology"

- id: SO
  namespace_iri: http://purl.obolibrary.org/obo/SO/
  version:    "2.6"
  title:      "Sequence Ontology"

- id: UO
  namespace_iri: http://purl.obolibrary.org/obo/UO/
  version:    "2026-01-16"
  title:      "Units Ontology (UO)"

- id: ECO
  namespace_iri: http://purl.obolibrary.org/obo/ECO/
  version:    "releases/2025-06-23"
  title:      "Evidence & Conclusion Ontology (ECO)"
  
- id: ICD10CM
  namespace_iri: http://purl.bioontology.org/ontology/ICD10CM/
  version:    "2026"
  title:      "International Classification of Diseases, Tenth Revision, Clinical Modification (ICD-10-CM)"

- id: MONDO
  namespace_iri: http://purl.obolibrary.org/obo/MONDO/
  version:    "2026-03-03"
  title:      "Mondo Disease Ontology"

- id: ORDO
  namespace_iri: http://purl.obolibrary.org/obo/ORDO/
  version:    "4.8"
  title:      "Orphanet Rare Disease Ontology (ORDO)"

- id: HGNC
  namespace_iri: http://identifiers.org/hgnc/
  version:    "2024-08-23"
  title:      "HUGO Gene Nomenclature Committee (HGNC)"

- id: OMIM
  namespace_iri: http://purl.bioontology.org/ontology/OMIM/
  version:    "2025_08_04"
  title:      "Online Mendelian Inheritance in Man (OMIM)"

- id: HGVS
  namespace_iri: https://varnomen.hgvs.org/
  version:    "21.0.0"
  title:      "Human Genome Variation Society Nomenclature"

- id: ICD11
  namespace_iri: http://id.who.int/icd/release/11/mms/
  version:    "2024-09-01"
  title:      "International Classification of Diseases, Eleventh Revision (ICD-11)"

- id: ISO3166
  namespace_iri: https://www.iso.org/iso-3166-country-codes.html
  version:    "2020(en)"
  title:      "International Organization for Standardization – ISO 3166 Country Codes"

- id: ICF
  namespace_iri: https://www.who.int/standards/classifications/international-classification-of-functioning-disability-and-health
  version:    "1.0.2"
  title:      "International Classification of Functioning, Disability and Health (ICF)"
