2025-10-12

Build

2025-02-04

• Add synonym files based on the biosynonyms format
• Add manifest for each resource, which also includes prefix maps
• Updates to OBO exports
• fully standardize prefix maps based on Bioregistry, preferring RDF URI prefixes when available

2025-01-20

New Resources

• PharmGKB Disease
• PharmGKB Variant
• PharmGKB Drug
• PharmGKB Pathway
• PharmGKB Gene

2025-01-16

New Resources

• ChEMBL Compound
• ChEMBL Target
• NIH RePORTER

Full Changelog: 2025-01-14...2025-01-16

2025-01-14

Full Changelog: 2025-01-13...2025-01-14

New Resources

• Pathway Interaction Database (pid.pathway)
• NCBI Genetic Code (ncbi.gc)
• CIVIC Gene (civic.gid)
• Integrated Taxonomic Information System (itis)
• Cancer Dependency Map Cell Lines (depmap)
• ClinicalTrials.gov (clinicaltrials)

2025-01-13

Full Changelog: 2025-01-12...2025-01-13

New Resources

• OMIM Phenotypic Series (omim.ps)
• UMLS Semantic Type Ontology (sty)
• SIGNOR Complexes, Families, Phenotypes, and Experiments (signor)

Updates

• Add OFN outputs
• Improved metadata and idspace: definitions

2025-01-12

Full Changelog: 2025-01-09...2025-01-12

New Resources

• NLM Publisher
• ICD10
• GeoNames Features
• ROR

2025-01-09

Full Changelog: 2024-11-05...2025-01-09

New Resources

• NLM Catalog
• BiGG Compartment
• CCLE
• ICD11

2024-11-05

Full Changelog: 2024-03-14...2024-11-05

This is another rebuild, which includes all sorts of fixes for data going missing and getting messier. It also includes several improvements based on PyOBO's more aggressive identifier validation.

2024-03-14

This is the first "release" of obo-db-ingest. Each release is accompanied by an archive to Zenodo.