{"schema_version":"1.0","hypothesis_id":3789,"triple":{"drug":"CLR01","drug_canonical":"clr01","mediator":"TAU","mediator_canonical":"MAPT","outcome":"neurodegenerative diseases","outcome_canonical":null},"domain":{"domain":"cross_domain","source":"alzheimer","target":"als"},"provenance_completeness":"partial_backfill","completeness_notes":"Backfilled retroactively from DB state on 2026-05-13. The pipeline_run this row references was created by the backfill script, not by the actual generation orchestrator. Source papers, claims, scoring, and embedding config are recovered; generation-time metadata (exact git commit at gen time, host, exact command) is not recoverable.","source_papers":[{"doi":"10.1097/cm9.0000000000003802","pmid":"40960157","year":2025,"roles":["mediator_outcome"],"title":"Protein aggregation in neurodegenerative diseases","journal":"Chin Med J (Engl)","work_id":53479,"publication_date":"2025-09-16"},{"doi":"10.1021/acschembio.9b00325","pmid":"31046227","year":2019,"roles":["drug_mediator"],"title":"Major Differences between the Self-Assembly and Seeding Behavior of Heparin-Induced and in Vitro Phosphorylated Tau and Their Modulation by Potential Inhibitors","journal":"ACS Chem Biol","work_id":61927,"publication_date":"2019-05-02"},{"doi":"10.1007/s13361-018-2027-6","pmid":"30062477","year":2018,"roles":["drug_mediator"],"title":"Native Top-Down Mass Spectrometry and Ion Mobility Spectrometry of the Interaction of Tau Protein with a Molecular Tweezer Assembly Modulator","journal":"J Am Soc Mass Spectrom","work_id":147103,"publication_date":"2018-07-30"}],"source_paper_count":3,"extracted_claims":[{"side":"drug_mediator","object":"tau","context":"aggregation and seeding of both heparin-induced and in vitro phosphorylated tau","subject":"CLR01","work_id":61927,"claim_id":41511,"polarity":"positive","predicate":"inhibits","confidence":0.9,"extraction_run_id":16},{"side":"drug_mediator","object":"tau","context":"in vitro NMR study","subject":"CLR01","work_id":61927,"claim_id":41512,"polarity":"positive","predicate":"binds_to","confidence":0.7,"extraction_run_id":16},{"side":"drug_mediator","object":"tau","context":"microtubule-binding region spanning residues K294-K331","subject":"CLR01","work_id":147103,"claim_id":104243,"polarity":"positive","predicate":"binds_to","confidence":0.9,"extraction_run_id":22},{"side":"mediator_outcome","object":"neurodegenerative diseases","context":"general","subject":"tau","work_id":53479,"claim_id":34412,"polarity":"positive","predicate":"associated_with","confidence":0.85,"extraction_run_id":15}],"extracted_claim_count":4,"extraction":{"model":"deepseek-v4-flash","model_source":"configured","prompt_version":"v1_2026_05_07","run_ids":[15,16,22]},"bridge":{"a_to_b_predicate":"binds_to","b_to_c_predicate":"associated_with","a_to_b_evidence_count":3,"b_to_c_evidence_count":1,"edge_support_log_ab":1.3862943611198906,"edge_support_log_bc":0.6931471805599453,"novelty_factor":1.0,"direct_a_to_c_count":0},"embedding":{"model":"bge-m3","dim":1024,"max_length":8192,"similarity_scores":{}},"scoring":{"method":"swanson_abc_log_evidence_with_novelty_penalty","formula":"score = min((log(ab+1) + log(bc+1)) * novelty / 10, 1.0); novelty = 1.0 if direct==0 else 0.7 / (direct+1)","score_raw":0.20794415416798356,"score":0.20794415416798356,"quality_tier":"mid","quality_reason":null},"pipeline_run":{"id":4,"run_uuid":"eb8b7730-d92e-4cd5-95dd-95f6c5d62cc2","command":"scripts/backfill_provenance_v2.py:v2_2026_05_12","status":"completed","git_commit":"9996ffaa56e9b7cd5f677bd8203624c2c18aa000","host":"MacBook-Pro-Daniel96.local","started_at":"2026-05-12T21:35:53.363326+00:00","ended_at":"2026-05-12T21:43:41.903387+00:00","notes":"Retroactive provenance backfill on 2026-05-13 for snapshot v2_2026_05_12. Synthetic pipeline_runs row — original generation run records are lost (pre-date provenance schema). All recoverable fields populated from current DB state (claims, works, repurposing_hypotheses); pipeline_run record is synthetic, hence completeness='partial_backfill'.\nBackfilled 1,618 provenance rows. Source papers: avg=3.73, zero=0. Claims matched: avg=4.09, zero=0.\nRefreshed 1,618 provenance rows. Source papers: avg=3.73, zero=0. Claims matched: avg=4.09, zero=0.\nRefreshed 1,618 provenance rows. Source papers: avg=3.73, zero=0. Claims matched: avg=4.09, zero=0.","domains":["als","alzheimer","depression","epilepsy","glioblastoma","inflammatory_bowel_disease","multiple_sclerosis","pancreatic_cancer","rheumatoid_arthritis","type_2_diabetes"]},"generated_at":"2026-05-12T21:43:39.496175+00:00"}