ID: a320aaa1-bbf Priority: 88 Type: one_shot Status: open
138 of 149 hypotheses are missing gene_expression_context. This task enriches the top 20 by composite_score with Allen Brain Atlas gene expression data, linking target genes to brain region expression patterns relevant to Alzheimer's disease.
gene_expression_context. Pushed fixed backfill script (removed sqlite3.row_factory, PRAGMA busy_timeout, BEGIN IMMEDIATE — all SQLite/PG-incompatible patterns). Ran backfill: 2 of 20 top-scoring missing hypotheses enriched (TYROBP=h-f503b337, PVALB=h-7b7ab657). Remaining 18 lacked identifiable gene targets in current GENE_EXPRESSION_DATA dictionary. Total missing went from 359 to 357. Push forced to origin/orchestra/task/a320aaa1-backfill-gene-expression-context-for-top. Gene set covers: LRP1, GRIN2B, MTOR, MCOLN1, CHMP4B, PVALB, HFE, PARP1, C1QA, CLU, PINK1, PARK2, LRRK2, SLC16A1, ATG7, PIKFYVE, TYROBP, PLCG2, SYK, PPP3CB, TREM2, APOE, TFEB, IL1B, NFKB1, C3, C1QB.{
"_reset_note": "This task was reset after a database incident on 2026-04-17.\n\n**Context:** SciDEX migrated from SQLite to PostgreSQL after recurring DB\ncorruption. Some work done during Apr 16-17 may have been lost.\n\n**Before starting work:**\n1. Check if the task's goal is ALREADY satisfied (run the relevant checks)\n2. Check `git log --all --grep=task:YOUR_TASK_ID` for prior commits\n3. If complete, verify and mark done. If partial, continue. If not done, proceed.\n\n**DB change:** SciDEX now uses PostgreSQL. `get_db()` auto-detects via\nSCIDEX_DB_BACKEND=postgres env var.",
"_reset_at": "2026-04-18T06:29:22.046013+00:00",
"_reset_from_status": "done"
}