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Topic And Entity Integration Audit

Why this audit happened

The user noticed that batch-oriented headings in reusable knowledge pages made the wiki read like an ingest history rather than a mature LLM wiki. This audit records the follow-up integration pass across all current topics/ and entities/ pages.

Pages reviewed

Page families changed

  • Topic pages: batch-derived additions were merged into disease or mechanism sections instead of remaining as update-history sections.
  • Entity pages: ILC2 and ILC3 hubs were reorganized around identity, disease branches, regulatory mechanisms, stromal/tissue context, and boundary-state cautions.
  • Main topic page: ILC_in_lung now records the current wiki status, source-mode separation, topic/entity map, and integrated working interpretation.
  • Entity directory README: clarified that entity pages are reusable knowledge nodes and that batch provenance belongs in digest, audit, and log pages.

Rule or interpretation changes

  • Batch 3 Regulatory Additions, Batch 3 Disease Additions, and Batch 3 Additions are no longer acceptable headings in topic or entity knowledge pages.
  • Batch provenance should remain traceable through digest, audit, log, and source pages, but should not structure the reusable biological synthesis.
  • Topic pages should be organized by scientific question: disease roles or regulatory mechanisms.
  • Entity pages should be organized by biological object: identity, strongest claims, disease branches, regulatory axes, boundary states, contradictions, open questions, and related pages.
  • Claim-level confidence remains about biological knowledge claims, not file-processing or ingest status.

Follow-up actions

  • Consider splitting ILC2 and ILC3 entity pages into stable subheadings used across all future cell-entity pages: Core Identity, Disease Branches, Regulatory Axes, Boundary States, Contradictions, and Open Questions.
  • Consider creating mediator entity pages for IL33, IL17A, IL22, SCF/KIT, NMU/NMUR1, PD-1, HIF-1alpha, and BATF once enough focused source pages support each mediator.