v0.1.0 - Production-Oriented Biomedical KB Foundation

v0.1.0 - Production-Oriented Biomedical KB Foundation

This release publishes Biomedical Agent DB Karpathy as a production-oriented
foundation for LLM-assisted biomedical knowledge-base construction.

Included

• PostgreSQL relational core for entities, names, xrefs, relations, evidence,
  source releases, ingest runs, and variant context.
• Numbered initial schema migration at schema/migrations/001_initial_core.sql.
• Installable Python package with pyproject.toml.
• biomedkb normalize-hgnc CLI for converting HGNC complete-set CSV/TSV rows
  into provenance-aware NDJSON.
• HGNC normalization library preserving approved symbols, aliases, previous
  symbols, common xrefs, source release metadata, and ingest run metadata.
• Unit tests for HGNC normalization and CLI output.
• GitHub Actions CI across Python 3.10, 3.11, and 3.12.
• Agent behavior rules for cautious biomedical normalization.
• MIT license, citation metadata, and privacy/no-telemetry statement.

Scope

This is not a complete biomedical database dump. It is the first production
foundation: schema, package, CLI, tests, CI, provenance model, and one working
source normalizer. Additional source pipelines can build on the same contracts.

Recommended Next Pipelines

1. MONDO diseases and synonyms.
2. ClinVar variant assertions with review status and disease links.
3. PubMed paper metadata for evidence provenance.
4. UniProt protein records and gene/protein xrefs.
5. ChEBI/PubChem chemical normalization.