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OncoRef 1.27.0: simpler decisions and adult Disposable evidence

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@iskandr iskandr released this 01 Nov 23:29
82f97b9

OncoRef 1.27.0 makes the final decision independent of descriptive evidence attributes.

Decision Proteins
CTA 701
Unsafe 18,062
Other 453
Unassessed 647

All 701 previous CTAs and all 18,062 previous Unsafe assignments remain. Other now records only the unmet identity requirement: 448 Nonreproductive and 5 Diffuse (Reproductive without cancer currently zero).

cta_selection.profiles() exposes native-unit tumor and normal RNA, tumor replication, measurement support, adult Disposable expression and developmental evidence as independent columns. Replace old Low/Weak/Normal/Tumor-supported/Disposable subtype filters with those attributes. They can overlap without changing the categorical decision.

Disposable designates an allowed adult compartment. The adult Disposable-only expression pattern no longer requires measured/low developmental expression: TCHHL1, LCE3B and LCE3C have the adult pattern among Other proteins, with missing developmental measurements explicitly retained.

The only top-level movement is OR10A4, Other → Unassessed after reviewed adult human nasal/olfactory RNA in two primary studies. Original donor spreadsheets are pinned through the shared cache API at version 2014-05-06. Native qPCR is not converted to TPM or treated as protein/clinical toxicity.

Simple rules, four protein reviews and exact data · Release and migration · Full source report · 37-slide logic PDF · Editable slides · PR #658

Validation: 2,838 local tests passed / 22 skipped; targeted policy/API/species/provenance checks, artifact receipts, strict docs, package builds and built-wheel API passed. Current safety ceilings, known CTA membership and species/reference boundaries are preserved. Historical sequence bundles remain independently versioned; translation QC and rare-normal coverage are separate requirements.