{
  "slug": "antimicrobial-amyloid",
  "round": 2,
  "date": "2026-10-14",
  "authoring_model": "Sol 6.1",
  "adversarial_reviewer": "Claude Opus 5.5 (Anthropic)",
  "canonical": "consensus_consistency_audit_2026-10-09\\revised\\antimicrobial-amyloid\\antimicrobial-amyloid.review.md",
  "edition_note": "Re-authored 2026-10-09 edition. The 2026-10-06 approval applied to the 2026-10-03 edition and was dropped by this revision; it was re-verified rather than assumed, and is superseded by the record restored here.",
  "level_before": "Β",
  "level_after": "Β",
  "confidence_before": "Moderate",
  "confidence_after": "Moderate",
  "role_before": "downstream consequence",
  "role_after": "downstream consequence",
  "revision_vs_approved_edition": {
    "level": {
      "approved_2026_10_03": "Γ",
      "revised_2026_10_09": "Β",
      "assessment": "not a regression; SC6 is capped at Β by the quoted rule 'association without temporal or perturbational proof caps at Β' and weakest-link follows it"
    },
    "role": {
      "approved_2026_10_03": "epiphenomenon (step 2)",
      "revised_2026_10_09": "downstream consequence (step 1)",
      "assessment": "not a regression; corrected, since infection-to-deposition dependency is demonstrated in the positive models so step 2 cannot be the first match"
    },
    "subclaims": {
      "approved": 5,
      "revised": 6,
      "assessment": "improvement; the human leg is graded in its own right"
    },
    "sources": {
      "approved": 60,
      "revised": 61
    },
    "claims": {
      "approved": 66,
      "revised": 68
    },
    "references_replaced": 37,
    "references_shared": 23,
    "cutoff": {
      "approved": "2026-10-03",
      "revised": "2026-10-08"
    },
    "msd": "unchanged (Mechanistic only / Stable / Contested)",
    "adversarial_record": {
      "approved": "present",
      "revised": "dropped",
      "assessment": "administrative regression, fixed by finding C1"
    },
    "detail_lost_without_error": [
      "lanabecestat DAYBREAK amyloid-PET sign correction (+2.2 rather than -2.2 centiloids)",
      "Soscia 'eight of twelve' organism count taken from the Discussion"
    ]
  },
  "counts": {
    "critical": 0,
    "major": 0,
    "minor": 2,
    "editorial": 1
  },
  "pmids_checked": 61,
  "pmids_failed": 0,
  "dois_checked": 61,
  "dois_failed": 0,
  "retractions_or_eoc": 0,
  "claims_spot_checked": 10,
  "claims_unsupported": 0,
  "findings": [
    {
      "id": "C1",
      "severity": "Minor",
      "location": "header blockquote; section before REFERENCES",
      "original": "no adversarial-review banner or approval section (dropped by the 2026-10-09 revision)",
      "corrected": "banner and ADVERSARIAL REVIEW AND APPROVAL section restored, with the Γ-to-Β and role changes re-adjudicated",
      "evidence": "the revision changed headline letter, causal role and 37 of 60 references, so the 2026-10-06 approval could not be carried forward unexamined"
    },
    {
      "id": "C2",
      "severity": "Editorial",
      "location": "23 lines",
      "original": "lost inter-word spaces: TASTYseries, Prosswimmer2024, Kumar2025, whereas5XFAD, twoHSV, Phase2donanemab, rank42, atΒ, retainΓ, nativeAβ, adjacentAβ, oligodendrocyteAβ, Consensus2Pro,0Deep,0API",
      "corrected": "spaced forms",
      "evidence": "known upstream builder whitespace defect; whitespace-only repair verified, with 5XFAD / Tg2576 / EV-A71 / miRNA-146a / HHV6A / APP/PS1 / 16S protected"
    },
    {
      "id": "C3",
      "severity": "Minor",
      "location": "scorecard final_score.confidence_rationale",
      "original": "density, heterogeneous controls and incomplete access set the confidence, not correctness",
      "corrected": "rationale resting on evidence density and reproducibility alone, with access depth reported separately",
      "evidence": "the framework ties confidence to evidence density and reproducibility, not the reviewer's access depth; re-derived on legitimate grounds the band remains Moderate, so only the basis changed. Historical score_before/score_after snapshots in consensus_validation left as-is.",
      "lead_policy_2026_10_14": "two-step test applied: access depth struck as a determinant, band re-derived from what remained; step 2 keeps Moderate because the review documents substantive evidence-quality and reproducibility concerns (the decisive HSV experiments conflict, the human detection literature splits between positive series and null or contamination-bounded ones, and nothing has been reproduced in the Abeta-selective form the claim needs), which are legitimate determinants, and the High band's requirement of extensive independent replication across labs, models and assay modalities is not met"
    }
  ],
  "rejected_findings": [
    "weakest-link aggregation applied as written; all three alternatives return Β; SC1-SC5 reported separately at Γ",
    "Β/Γ boundary for the conjunction: the Γ legs are real but the conjunction is gated by its weakest link by preregistration",
    "PMID 32336252 typed 'Comment' by PubMed but is an original reanalysis and is described as such",
    "anti-amyloid RCTs used as counterevidence rather than positive threshold crossings: correct handling",
    "PubMed title fields for references 8 and 21 drop italicised spacing and the species name; the review prints the full correct titles",
    "validator warning v5.claim_form ('phenomenon'): the claim states function plus consequence, the documented exception",
    "the 9 October 2026 provenance-reconciliation block is accurate as written and retained; the spliced-block-versus-preserved-notes self-contradiction reported elsewhere in this audit batch does not occur here, because the preserved METHODS AND CONSENSUS CONTRIBUTION section already records signed-in Consensus browser use",
    "confidence band re-derived independently of access depth: remains Moderate on density and reproducibility alone",
    "renderer defect printing the nominal as its own 'Best-supported rival': checked, absent (models_evaluated[0] is rank 1, is_nominal false; nominal is rank 5)"
  ],
  "residual_limitations": [
    "6 sources at partial-body depth, 55 at abstract/status depth; Methods-level figures rest on package retrieval receipts",
    "correction PMID 30571943 remains metadata-verified but body-unavailable, so exact inoculum figures are withheld",
    "scorecard provenance strings name the generating system 'Codex'; not altered here"
  ],
  "divergent_copies_not_modified": [
    "hsef_v53_popularity_ranks_41_45_2026-10-08\\antimicrobial-amyloid\\antimicrobial-amyloid.review.md",
    "hsef_v53_neurodegeneration_2026-10-03\\antimicrobial-amyloid\\antimicrobial-amyloid.review.md (earlier approved edition, keeps its own 2026-10-06 approval)"
  ],
  "scorecard_changed": true,
  "validator": {
    "tool": "hsef-hypothesis-review-v5/tools/validate_review.py",
    "pass": 33,
    "warn": 1,
    "fail": 1,
    "warn_checks": [
      "v5.claim_form"
    ],
    "fail_checks": [
      "v5.lay_summary"
    ],
    "note": "v5.claim_form rejected by standing convention; v5.lay_summary is marked mandatory from v5.4 and does not apply to this v5.3 package"
  },
  "status": "Approved as revised",
  "scorecard_fields_changed": [
    "final_score.confidence_rationale"
  ]
}