id: monarch-kg
version: '2026-05-03'
generated_at: '2026-05-03T02:59:52Z'
packages:
  biolink: 4.3.9
  koza: 2.3.0
  monarch-ingest: 0.8.0
artifacts:
- path: monarch-kg.tar.gz
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- path: merged_graph_stats.yaml
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- path: qc_report.yaml
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sources:
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  transform_version: 3d9d654f
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  build_version: alliance-ingest_8.3.0_3d9d654f_4.3.6
  generated_at: '2026-05-02T04:44:17Z'
  sources:
  - id: infores:agr
    name: Alliance of Genome Resources
    urls:
    - https://fms.alliancegenome.org/download/DISEASE-ALLIANCE_COMBINED.tsv.gz
    - https://fms.alliancegenome.org/download/PHENOTYPE_RGD.json.gz
    - https://fms.alliancegenome.org/download/PHENOTYPE_MGI.json.gz
    - https://fms.alliancegenome.org/download/PHENOTYPE_WB.json.gz
    - https://fms.alliancegenome.org/download/BGI_MGI.json.gz
    - https://fms.alliancegenome.org/download/BGI_RGD.json.gz
    - https://fms.alliancegenome.org/download/BGI_WB.json.gz
    - https://fms.alliancegenome.org/download/BGI_FB.json.gz
    - https://fms.alliancegenome.org/download/BGI_ZFIN.json.gz
    - https://fms.alliancegenome.org/download/BGI_SGD.json.gz
    - https://fms.alliancegenome.org/download/BGI_XBXL.json.gz
    - https://fms.alliancegenome.org/download/BGI_XBXT.json.gz
    - https://fms.alliancegenome.org/download/VARIANT-ALLELE_NCBITaxon6239.tsv.gz
    - https://fms.alliancegenome.org/download/VARIANT-ALLELE_NCBITaxon7955.tsv.gz
    - https://fms.alliancegenome.org/download/VARIANT-ALLELE_NCBITaxon10090.tsv.gz
    - https://fms.alliancegenome.org/download/VARIANT-ALLELE_NCBITaxon10116.tsv.gz
    - https://fms.alliancegenome.org/download/AGM_MGI.json.gz
    - https://fms.alliancegenome.org/download/AGM_ZFIN.json.gz
    - https://fms.alliancegenome.org/download/AGM_RGD.json.gz
    - https://fms.alliancegenome.org/download/EXPRESSION_RGD.json.gz
    - https://fms.alliancegenome.org/download/EXPRESSION_MGI.json.gz
    - https://fms.alliancegenome.org/download/EXPRESSION_ZFIN.json.gz
    - https://fms.alliancegenome.org/download/EXPRESSION_FB.json.gz
    - https://fms.alliancegenome.org/download/EXPRESSION_WB.json.gz
    - https://fms.alliancegenome.org/download/EXPRESSION_SGD.json.gz
    version: 8.3.0
    version_method: alliance_fms_api
    retrieved_at: '2026-05-02T04:44:15Z'
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  - path: alliance_allele_nodes.tsv
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  - path: alliance_disease_edges.tsv
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  - path: alliance_gene_nodes.tsv
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  - path: alliance_gene_to_expression_edges.tsv
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  - path: alliance_genotype_edges.tsv
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  - path: alliance_genotype_nodes.tsv
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  - path: alliance_phenotype_edges.tsv
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  tools:
    koza: 2.1.1
    biolink_model: 4.3.6
    kghub_downloader: 0.4.4
- id: bgee-ingest
  version: '15.2'
  transform_version: 040fbaf8
  biolink_version: 4.3.9
  build_version: bgee-ingest_15.2_040fbaf8_4.3.9
  generated_at: '2026-05-02T06:03:52Z'
  sources:
  - id: infores:bgee
    name: "BGee \u2014 Gene Expression"
    urls:
    - https://bgee.org/ftp/bgee_v15_2/download/calls/expr_calls/Homo_sapiens_expr_simple.tsv.gz
    - https://bgee.org/ftp/bgee_v15_2/download/calls/expr_calls/Bos_taurus_expr_simple.tsv.gz
    - https://bgee.org/ftp/bgee_v15_2/download/calls/expr_calls/Canis_lupus_familiaris_expr_simple.tsv.gz
    - https://bgee.org/ftp/bgee_v15_2/download/calls/expr_calls/Gallus_gallus_expr_simple.tsv.gz
    - https://bgee.org/ftp/bgee_v15_2/download/calls/expr_calls/Sus_scrofa_expr_simple.tsv.gz
    - https://bgee.org/ftp/bgee_v15_2/download/calls/expr_calls/Rattus_norvegicus_expr_simple.tsv.gz
    - https://bgee.org/ftp/bgee_v15_2/download/calls/expr_calls/Mus_musculus_expr_simple.tsv.gz
    - https://bgee.org/ftp/bgee_v15_2/download/calls/expr_calls/Danio_rerio_expr_simple.tsv.gz
    - https://bgee.org/ftp/bgee_v15_2/download/calls/expr_calls/Xenopus_laevis_expr_simple.tsv.gz
    - https://bgee.org/ftp/bgee_v15_2/download/calls/expr_calls/Drosophila_melanogaster_expr_simple.tsv.gz
    - https://bgee.org/ftp/bgee_v15_2/download/calls/expr_calls/Caenorhabditis_elegans_expr_simple.tsv.gz
    version: '15.2'
    version_method: ftp_index_probe
    retrieved_at: '2026-05-02T06:03:52Z'
  artifacts:
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    sha256: 81f558bbe6f8b49eb834e9311683ea4c8a077d7cbd366a7c8910953f4732c5d1
  tools:
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- id: biogrid-ingest
  version: 4.4.226
  transform_version: 181c6cf7
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  generated_at: '2026-05-02T06:10:55Z'
  sources:
  - id: infores:biogrid
    name: "BioGRID \u2014 Gene/Protein Interactions"
    urls:
    - https://downloads.thebiogrid.org/Download/BioGRID/Release-Archive/BIOGRID-4.4.226/BIOGRID-ALL-4.4.226.mitab.zip
    version: 4.4.226
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    retrieved_at: '2026-05-02T06:10:54Z'
  artifacts:
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  tools:
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- id: clingen-ingest
  version: unknown
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  generated_at: '2026-05-02T06:17:34Z'
  sources:
  - id: infores:clingen
    name: "ClinGen \u2014 Clinical Genome Resource"
    urls:
    - http://erepo.clinicalgenome.org/redmine/projects/evrepo/pcer/api/classifications/all?format=tabbed
    version: unknown
    version_method: unavailable
    retrieved_at: '2026-05-02T06:17:33Z'
  - id: infores:hgnc
    name: HUGO Gene Nomenclature Committee
    urls:
    - http://storage.googleapis.com/public-download-files/hgnc/tsv/tsv/hgnc_complete_set.txt
    version: '2026-05-01'
    version_method: http_last_modified
    retrieved_at: '2026-05-02T06:17:33Z'
  artifacts:
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  - path: clingen_variant_edges.tsv
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  - path: clingen_variant_nodes.tsv
    sha256: ca73c4f7039d4f6188e2de0793215b9c8dec34510aaad61db3f79544fd3c98bc
  tools:
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- id: clinvar-ingest
  version: '2026-04-27'
  transform_version: 53c243d5
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  build_version: clinvar-ingest_2026-04-27_53c243d5_4.3.6
  generated_at: '2026-05-02T15:03:34Z'
  sources:
  - id: infores:clinvar
    name: ClinVar
    urls:
    - https://ftp.ncbi.nlm.nih.gov/pub/clinvar/vcf_GRCh38/clinvar.vcf.gz
    - https://ftp.ncbi.nlm.nih.gov/pub/clinvar/vcf_GRCh38/clinvar.vcf.gz.tbi
    - https://ftp.ncbi.nlm.nih.gov/pub/clinvar/tab_delimited/submission_summary.txt.gz
    version: '2026-04-27'
    version_method: http_last_modified
    retrieved_at: '2026-05-02T15:03:33Z'
  - id: infores:medgen
    name: MedGen
    urls:
    - https://ftp.ncbi.nlm.nih.gov/pub/medgen/MedGenIDMappings.txt.gz
    version: '2026-05-01'
    version_method: http_last_modified
    retrieved_at: '2026-05-02T15:03:33Z'
  - id: infores:mondo
    name: Mondo Disease Ontology (SSSOM)
    urls:
    - https://data.monarchinitiative.org/mappings/latest/mondo.sssom.tsv
    version: '2026-04-12'
    version_method: http_last_modified
    retrieved_at: '2026-05-02T15:03:33Z'
  artifacts:
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  - path: clinvar_variant_nodes.tsv
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  tools:
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- id: ctd-ingest
  version: '2026-04-30'
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  build_version: ctd-ingest_2026-04-30_9855dc58_4.3.9
  generated_at: '2026-05-02T06:27:05Z'
  sources:
  - id: infores:ctd
    name: Comparative Toxicogenomics Database (CTD)
    urls:
    - http://ctdbase.org/reports/CTD_chemicals_diseases.tsv.gz
    version: '2026-04-30'
    version_method: http_last_modified
    retrieved_at: '2026-05-02T06:27:05Z'
  artifacts:
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  tools:
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- id: cureid-ingest
  version: '2025-12-18'
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  build_version: cureid-ingest_2025-12-18_7ce72810_4.3.9
  generated_at: '2026-05-02T06:28:48Z'
  sources:
  - id: infores:cureid
    name: "CureID \u2014 Drug Repurposing Database"
    urls:
    - https://opendata.ncats.nih.gov/public/cureid/cureid_data.tsv
    version: '2025-12-18'
    version_method: http_last_modified
    retrieved_at: '2026-05-02T06:28:48Z'
  artifacts:
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  - path: cureid_nodes.tsv
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- id: dictybase-ingest
  version: unknown
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  generated_at: '2026-05-02T06:31:58Z'
  sources:
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    name: dictyBase
    urls:
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    - http://dictybase.org/db/cgi-bin/dictyBase/download/download.pl?area=mutant_phenotypes&ID=all-mutants-ddb_g.txt
    version: unknown
    version_method: unavailable
    retrieved_at: '2026-05-02T06:31:57Z'
  - id: infores:ddpheno
    name: Dicty Phenotype Ontology (BBOP SQLite)
    urls:
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    version: '2022-10-17'
    version_method: http_last_modified
    retrieved_at: '2026-05-02T06:31:57Z'
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- id: go-ingest
  version: '2026-03-28'
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  build_version: go-ingest_2026-03-28_ae3e5c3d_4.3.6
  generated_at: '2026-05-02T06:38:08Z'
  sources:
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    name: GO Annotations (GOA)
    urls:
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    - http://current.geneontology.org/annotations/goa_cow.gaf.gz
    - http://current.geneontology.org/annotations/goa_pig.gaf.gz
    - http://current.geneontology.org/annotations/goa_chicken.gaf.gz
    - http://current.geneontology.org/annotations/zfin.gaf.gz
    - http://current.geneontology.org/annotations/fb.gaf.gz
    - http://current.geneontology.org/annotations/wb.gaf.gz
    - http://current.geneontology.org/annotations/dictybase.gaf.gz
    - http://current.geneontology.org/annotations/sgd.gaf.gz
    - http://current.geneontology.org/annotations/pombase.gaf.gz
    version: '2026-03-28'
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    retrieved_at: '2026-05-02T06:38:06Z'
  - id: infores:eco
    name: Evidence & Conclusion Ontology (gaf-eco-mapping)
    urls:
    - https://raw.githubusercontent.com/evidenceontology/evidenceontology/master/gaf-eco-mapping.txt
    version: 269fa799
    version_method: github_branch_head
    retrieved_at: '2026-05-02T06:38:06Z'
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- id: hgnc-ingest
  version: '2026-05-01'
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  build_version: hgnc-ingest_2026-05-01_425c6c6d_4.3.9
  generated_at: '2026-05-02T04:03:17Z'
  sources:
  - id: infores:hgnc
    name: HUGO Gene Nomenclature Committee
    urls:
    - http://storage.googleapis.com/public-download-files/hgnc/tsv/tsv/hgnc_complete_set.txt
    version: '2026-05-01'
    version_method: rest_info_api
    retrieved_at: '2026-05-02T04:03:17Z'
  - id: infores:agr
    name: Alliance of Genome Resources
    urls:
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    version: 8.3.0
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    retrieved_at: '2026-05-02T04:03:17Z'
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- id: medic-ingest
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  generated_at: '2026-05-02T06:46:45Z'
  sources:
  - id: infores:medic
    name: "MeDIC \u2014 Medicines, Diseases, Indications and Contraindications"
    urls:
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    version: 1.3.0
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    retrieved_at: '2026-05-02T06:46:45Z'
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- id: mmrrc-ingest
  version: '2026-04-26'
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  build_version: mmrrc-ingest_2026-04-26_bcfb4af4_4.2.5
  generated_at: '2026-05-02T06:48:38Z'
  sources:
  - id: infores:mmrrc
    name: Mutant Mouse Resource & Research Centers (MMRRC)
    urls:
    - https://www.mmrrc.org/about/mmrrc_catalog_data.csv
    version: '2026-04-26'
    version_method: http_last_modified
    retrieved_at: '2026-05-02T06:48:37Z'
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- id: monarch-phenotype-profile-ingest
  version: '2026-02-16'
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  generated_at: '2026-05-02T06:53:09Z'
  sources:
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    name: HPO Annotations (HPOA)
    urls:
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    - http://purl.obolibrary.org/obo/hp/hpoa/genes_to_disease.txt
    - http://purl.obolibrary.org/obo/hp/hpoa/phenotype.hpoa
    version: '2026-02-16'
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    retrieved_at: '2026-05-02T06:53:09Z'
  - id: infores:hp
    name: Human Phenotype Ontology (HP)
    urls:
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    version: '2026-02-16'
    version_method: http_last_modified
    retrieved_at: '2026-05-02T06:53:09Z'
  - id: infores:mondo
    name: Mondo Disease Ontology (SSSOM)
    urls:
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    version: '2026-04-12'
    version_method: http_last_modified
    retrieved_at: '2026-05-02T06:53:09Z'
  artifacts:
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  - path: hpoa_gene_to_disease_edges.tsv
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- id: ncbi-gene
  version: '2026-05-02'
  transform_version: 9fc4ca75
  biolink_version: 4.3.6
  build_version: ncbi-gene_2026-05-02_9fc4ca75_4.3.6
  generated_at: '2026-05-02T20:06:04Z'
  sources:
  - id: infores:ncbi-gene
    name: NCBI Gene
    urls:
    - https://ftp.ncbi.nih.gov/gene/DATA/gene_info.gz
    version: '2026-05-02'
    version_method: http_last_modified
    retrieved_at: '2026-05-02T20:06:04Z'
  artifacts:
  - path: ncbi_gene.nt.gz
    sha256: 3383d41593bdb9ee3242e1f4eb85001f540f9ace49c25e587356ae992da2ad08
  - path: ncbi_gene_nodes.tsv
    sha256: 247a90410bc1c6cbc7203c9c45f262e2bb1b6e4af82ef51743f79e6966dbc94f
  tools:
    koza: 2.2.0
    biolink_model: 4.3.6
    kghub_downloader: 0.4.4
- id: omim-ingest
  version: '2026-05-01'
  transform_version: b617a53b
  biolink_version: 4.3.6
  build_version: omim-ingest_2026-05-01_b617a53b_4.3.6
  generated_at: '2026-05-02T06:56:07Z'
  sources:
  - id: infores:omim
    name: OMIM (Online Mendelian Inheritance in Man)
    urls:
    - https://data.omim.org/downloads/{MONARCH_OMIM_DOWNLOAD_KEY}/morbidmap.txt
    version: '2026-05-01'
    version_method: file_header
    retrieved_at: '2026-05-02T06:56:07Z'
  artifacts:
  - path: omim_gene_to_disease_edges.tsv
    sha256: 40a701b2d89b94a519f3d8ffb2b2c465441b11aed9c37e2bdc0d88f91a231d47
  tools:
    koza: 2.1.1
    biolink_model: 4.3.6
    kghub_downloader: 0.4.4
- id: pantherdb-orthologs-ingest
  version: '2024-04-02'
  transform_version: ca67e22d
  biolink_version: 4.3.6
  build_version: pantherdb-orthologs-ingest_2024-04-02_ca67e22d_4.3.6
  generated_at: '2026-05-02T07:16:06Z'
  sources:
  - id: infores:panther
    name: PantherDB Orthologs
    urls:
    - http://data.pantherdb.org/ftp/ortholog/current_release/AllOrthologs.tar.gz
    version: '2024-04-02'
    version_method: http_last_modified
    retrieved_at: '2026-05-02T07:16:05Z'
  - id: infores:ncbi-gene
    name: NCBI Gene
    urls:
    - https://ftp.ncbi.nlm.nih.gov/gene/DATA/gene_info.gz
    version: '2026-05-01'
    version_method: http_last_modified
    retrieved_at: '2026-05-02T07:16:05Z'
  artifacts:
  - path: panther_genome_orthologs_edges.tsv
    sha256: d4e31fdf998d1c55345438c0255ddf7b61bd6012ec23bfea5776249e26607feb
  tools:
    koza: 2.1.1
    biolink_model: 4.3.6
    kghub_downloader: 0.4.4
- id: phenopacket-ingest
  version: 0.1.26
  transform_version: 33a8b263
  biolink_version: 4.3.6
  build_version: phenopacket-ingest_0.1.26_33a8b263_4.3.6
  generated_at: '2026-05-02T07:20:35Z'
  sources:
  - id: infores:phenopacket-store
    name: Phenopacket Store
    urls:
    - https://github.com/monarch-initiative/phenopacket-store/releases/latest/download/all_phenopackets.zip
    version: 0.1.26
    version_method: github_release_api
    retrieved_at: '2026-05-02T07:20:35Z'
  artifacts:
  - path: phenopacket_ingest_edges.tsv
    sha256: 62a8c22a415704bc92a80bdd4689e9df111545e2de5fd781ecd306370845a18f
  - path: phenopacket_ingest_nodes.tsv
    sha256: b14b0badec30409da5b0a1ad01f9dd6ece20de40c24ae9094d5f1408eb459104
  tools:
    koza: 2.1.1
    biolink_model: 4.3.6
    kghub_downloader: 0.4.4
- id: pombase-ingest
  version: '2026-05-02'
  transform_version: be65ca88
  biolink_version: 4.3.9
  build_version: pombase-ingest_2026-05-02_be65ca88_4.3.9
  generated_at: '2026-05-02T07:22:29Z'
  sources:
  - id: infores:pombase
    name: PomBase
    urls:
    - https://www.pombase.org/data/names_and_identifiers/gene_IDs_names_products.tsv
    - https://www.pombase.org/data/annotations/Phenotype_annotations/phenotype_annotations.pombase.phaf.gz
    version: '2026-05-02'
    version_method: http_last_modified
    retrieved_at: '2026-05-02T07:22:29Z'
  artifacts:
  - path: pombase_gene_nodes.tsv
    sha256: 8bf7c01878efc78068594b8bc8efc1e31056145fa9a429bff15f86aa7e1ff797
  - path: pombase_gene_to_phenotype_edges.tsv
    sha256: da759154be3958168ef26570f5500667469f77aedbd6d50290f005dc453a1bda
  tools:
    koza: 2.3.1
    biolink_model: 4.3.9
    kghub_downloader: 0.4.5
- id: reactome-ingest
  version: '96'
  transform_version: b244eb83
  biolink_version: 4.3.9
  build_version: reactome-ingest_96_b244eb83_4.3.9
  generated_at: '2026-05-02T07:24:16Z'
  sources:
  - id: infores:reactome
    name: Reactome
    urls:
    - https://reactome.org/download/current/ReactomePathways.txt
    - https://reactome.org/download/current/NCBI2Reactome.txt
    - https://reactome.org/download/current/ChEBI2Reactome.txt
    version: '96'
    version_method: reactome_content_service
    retrieved_at: '2026-05-02T07:24:16Z'
  artifacts:
  - path: reactome_chemical_to_pathway_edges.tsv
    sha256: ca606891ee649f3b6e870396f2daabcf5e332054dea01e424f9074c5b37779cc
  - path: reactome_gene_to_pathway_edges.tsv
    sha256: bf016a47e91af03e4fb37e51853c8df669d94621cbe8db3747d22fb4ad93e2bb
  - path: reactome_pathway_nodes.tsv
    sha256: 9fd4b15a6b68a24f6ea341de97c8c4e3baa45f0fe8cee6c896ebca72df6615c4
  tools:
    koza: 2.3.1
    biolink_model: 4.3.9
    kghub_downloader: 0.4.5
- id: string-ingest
  version: '12.0'
  transform_version: f96320f0
  biolink_version: 4.3.9
  build_version: string-ingest_12.0_f96320f0_4.3.9
  generated_at: '2026-05-02T07:57:51Z'
  sources:
  - id: infores:string
    name: "STRING \u2014 Functional Protein Interaction Networks"
    urls:
    - https://stringdb-downloads.org/download/protein.links.detailed.v12.0/9606.protein.links.detailed.v12.0.txt.gz
    - https://stringdb-downloads.org/download/protein.links.detailed.v12.0/10116.protein.links.detailed.v12.0.txt.gz
    - https://stringdb-downloads.org/download/protein.links.detailed.v12.0/10090.protein.links.detailed.v12.0.txt.gz
    - https://stringdb-downloads.org/download/protein.links.detailed.v12.0/9615.protein.links.detailed.v12.0.txt.gz
    - https://stringdb-downloads.org/download/protein.links.detailed.v12.0/9913.protein.links.detailed.v12.0.txt.gz
    - https://stringdb-downloads.org/download/protein.links.detailed.v12.0/9031.protein.links.detailed.v12.0.txt.gz
    - https://stringdb-downloads.org/download/protein.links.detailed.v12.0/8364.protein.links.detailed.v12.0.txt.gz
    - https://stringdb-downloads.org/download/protein.links.detailed.v12.0/7955.protein.links.detailed.v12.0.txt.gz
    - https://stringdb-downloads.org/download/protein.links.detailed.v12.0/7227.protein.links.detailed.v12.0.txt.gz
    - https://stringdb-downloads.org/download/protein.links.detailed.v12.0/6239.protein.links.detailed.v12.0.txt.gz
    - https://stringdb-downloads.org/download/protein.links.detailed.v12.0/44689.protein.links.detailed.v12.0.txt.gz
    - https://stringdb-downloads.org/download/protein.links.detailed.v12.0/227321.protein.links.detailed.v12.0.txt.gz
    - https://stringdb-downloads.org/download/protein.links.detailed.v12.0/284812.protein.links.detailed.v12.0.txt.gz
    - https://stringdb-downloads.org/download/protein.links.detailed.v12.0/4932.protein.links.detailed.v12.0.txt.gz
    - https://string-db.org/mapping_files/entrez/all_organisms.entrez_2_string.tsv
    version: '12.0'
    version_method: url_path
    retrieved_at: '2026-05-02T07:57:50Z'
  artifacts:
  - path: string_protein_links_edges.tsv
    sha256: a9108f95a288e3ec7786c23d974bcd9cbaf0126a46516672d49a889ad1055c34
  tools:
    koza: 2.3.1
    biolink_model: 4.3.9
    kghub_downloader: 0.4.5
- id: upheno-cross-species-ingest
  version: 531e30c7
  transform_version: 5761f211
  biolink_version: 4.4.0rc1.post3.dev0+5615681fe
  build_version: upheno-cross-species-ingest_531e30c7_5761f211_4.4.0rc1.post3.dev0+5615681fe
  generated_at: '2026-05-02T15:19:14Z'
  sources:
  - id: infores:upheno
    name: uPheno Cross-Species Phenotype Mappings
    urls:
    - https://github.com/obophenotype/upheno-dev/raw/refs/heads/master/src/mappings/upheno-cross-species.sssom.tsv
    version: 531e30c7
    version_method: github_branch_head
    retrieved_at: '2026-05-02T15:19:14Z'
  artifacts:
  - path: upheno_phenotype_to_phenotype_edges.tsv
    sha256: fef6523d71b03cbe01efd6c7226b8fc1b67146c20b3a094c142c89a830eaec34
  - path: upheno_phenotype_to_phenotype_nodes.tsv
    sha256: 6d64b989b8dd52cf74ae157634931cada329d9e57c7c89132ca866b322a27c81
  tools:
    koza: 2.3.1
    biolink_model: 4.4.0rc1.post3.dev0+5615681fe
    kghub_downloader: 0.4.5
- id: xenbase-ingest
  version: '2026-04-22'
  transform_version: 8c8d0fe6
  biolink_version: 4.3.9
  build_version: xenbase-ingest_2026-04-22_8c8d0fe6_4.3.9
  generated_at: '2026-05-02T08:08:47Z'
  sources:
  - id: infores:xenbase
    name: Xenbase
    urls:
    - https://download.xenbase.org/xenbase/GenePageReports/XenbaseGeneHumanOrthologMapping.txt
    - https://download.xenbase.org/xenbase/GenePageReports/XenbaseGeneMouseOrthologMapping.txt
    - https://download.xenbase.org/xenbase/GenePageReports/XenbaseGeneZebrafishOrthologMapping.txt
    - https://download.xenbase.org/xenbase/GenePageReports/XenbaseGenepageToGeneIdMapping.txt
    - https://download.xenbase.org/xenbase/GenePageReports/XenbaseGeneNonEntrezOrthologMapping.txt
    version: '2026-04-22'
    version_method: http_last_modified
    retrieved_at: '2026-05-02T08:08:42Z'
  - id: infores:monarchinitiative-xpo-spo
    name: Xenopus XPO/SPO mapping (Monarch-curated)
    urls:
    - https://storage.googleapis.com/monarch-ingest/manually-uploaded-data/xb_xpo_spo_v_v1.tab
    version: '2022-09-27'
    version_method: http_last_modified
    retrieved_at: '2026-05-02T08:08:42Z'
  artifacts:
  - path: xenbase_gene_to_phenotype_edges.tsv
    sha256: a4e5dbe7b743575a86704c7cff4da308c1f13f604fcdc3f652f2646b3bb052bf
  - path: xenbase_gene_to_phenotype_nodes.tsv
    sha256: 2bed91c8b666008748233133166d7ca895f164261eacd107b4e3c5ae288509c5
  - path: xenbase_non_entrez_orthologs_edges.tsv
    sha256: cf3b6a8c9cbbdb22c9706600a4ef498d3b0888dd404ef2e2c204eee4708632fc
  - path: xenbase_orthologs_edges.tsv
    sha256: 0d4348cc7f6fe32370174fc7bbbf12ccb111ba05407cd33d146d092d32ec87ba
  tools:
    koza: 2.3.1
    biolink_model: 4.3.9
    kghub_downloader: 0.4.5
- id: zfin-ingest
  version: '2026-05-02'
  transform_version: 15c3cda5
  biolink_version: 4.3.9
  build_version: zfin-ingest_2026-05-02_15c3cda5_4.3.9
  generated_at: '2026-05-02T08:15:05Z'
  sources:
  - id: infores:zfin
    name: Zebrafish Information Network (ZFIN)
    urls:
    - https://zfin.org/downloads/phenoGeneCleanData_fish.txt
    - https://zfin.org/downloads/phenotype_fish.txt
    - https://zfin.org/downloads/pheno_environment_fish.txt
    - https://zfin.org/downloads/pub_to_pubmed_id_translation.txt
    - https://zfin.org/downloads/fly_orthos.txt
    - https://zfin.org/downloads/human_orthos.txt
    - https://zfin.org/downloads/mouse_orthos.txt
    version: '2026-05-02'
    version_method: http_last_modified
    retrieved_at: '2026-05-02T08:15:04Z'
  - id: infores:zp
    name: Zebrafish Phenotype Ontology id_map
    urls:
    - https://raw.githubusercontent.com/obophenotype/zebrafish-phenotype-ontology/master/src/curation/id_map_zfin.tsv
    version: b72b0cdf
    version_method: github_branch_head
    retrieved_at: '2026-05-02T08:15:04Z'
  artifacts:
  - path: zfin_gene_to_phenotype_edges.tsv
    sha256: 73304167a10747a3426c1657611d008e37bdf41b5eca5e7dc546a0e5d1c4fa4c
  - path: zfin_genotype_to_phenotype_edges.tsv
    sha256: ac1949968320e34824353eefa6f4f9e1827359db610fb131c1e085f1ecf8ebae
  - path: zfin_orthology_edges.tsv
    sha256: 330910cb458ebf77fb6c6f570e474763fc106f3235dba13118ddf05bb77ef206
  tools:
    koza: 2.3.1
    biolink_model: 4.3.9
    kghub_downloader: 0.4.5
disagreements: []
version_drift:
- id: infores:ncbi-gene
  versions_observed:
  - '2026-05-01'
  - '2026-05-02'
  by_ingest:
    ncbi-gene: '2026-05-02'
    pantherdb-orthologs-ingest: '2026-05-01'
