chore(release): v0.5.0 Phase 1 Milestone Release

[engkinandatama]

BioContext v0.5.0 Release

This release establishes the Phase 1 Milestone for BioContext.

Highlights & Key Deliverables

• Authoritative Molecular Resolution: 7 operasional adapters (HGNC, NCBI Entrez, UniProtKB, Ensembl, MGI, QuickGO, Reactome).
• 100 Benchmark Test Cases: Validated 100% passing resolution accuracy across diverse approved gene symbols, clinical/historical aliases, Entrez Gene IDs, UniProt accessions, and mouse models (Mus musculus).
• End-to-End Deep Context Pipeline: Verified multi-layer resolution $\rightarrow$ Gene Ontology functional annotations $\rightarrow$ Reactome pathways in tests/test_e2e_pipeline.py.
• FastMCP Server: 8 production-ready MCP tools for Cursor, Antigravity IDE, Claude Desktop, Claude Code, and Goose.
• Embedded Caching: SQLite cache layer with optimized alias caching and TTL.
• Documentation: Comprehensive guides in README.md, docs/QUICKSTART.md, and docs/ARCHITECTURE.md.
• Roadmap Evolution: Updated with Phase 1.5 (Disease, Drug & Clinical Context) bridging Phase 1 to Phase 2 (Knowledge Graph & AI Reasoning).