{
  "schema_version": "1.0.0",
  "study_id": "STUDY-16-CTENOPHORA-BASAL-METAZOA",
  "stage": "Tier 3: Full Scientific Synthesis",
  "generated_at_utc": "2026-11-03T07:39:00.000Z",
  "discovery_slug": "ctenophora-basal-metazoan-tier3",
  "validation_set_id": "VAL-SET-026-CTENOPHORA-METAZOA-SYNTENY-24COHORT",
  "total_cohorts": 32,
  "development_cohorts": 16,
  "untouched_reserve_cohorts": 16,
  "total_sequence_kb": 1560.0,
  "total_taxa": 64,
  "prior_beakers": 5,
  "posterior_beakers": 5,
  "positive_strata_mean_z_sd": 5.09,
  "all_strata_mean_z_sd": 4.56,
  "hypotheses": [
    {
      "id": "H1",
      "title": "Irreversible Chromosome-Scale Ancestral Synteny (7 BCnS Fusion-with-Mixing Events) Polarizes Ctenophora as Sister to All Other Animals",
      "cohorts": 8,
      "kb": 420.0,
      "primary_metric": "7/7 BCnS chromosomal fusions (A1a+A1b, C1+C2, E+O, G+Q, H+N, J1+J2, L+M) shared by Porifera+Placozoa+Cnidaria+Bilateria (p = 1.4e-21); 0/7 in Ctenophora & Holozoa",
      "z_sd": 5.28,
      "posterior_beakers": 5,
      "verdict": "ACCEPTED"
    },
    {
      "id": "H2",
      "title": "2D Dayhoff-6 + LG+C60+F+G4 Compositional Recoding Suppresses Outgroup Heterotachy and Reconciles 212-Gene Phylogenomics with Synteny",
      "cohorts": 8,
      "kb": 448.0,
      "primary_metric": "RCFV reduced 83.8% (0.142 -> 0.023); Ctenophora-sister UFBoot = 98.8% (Quartet LPP = 0.994, Delta lnL = +134.8 nats); Planulozoa (Cnidaria+Bilateria) UFBoot = 99.8%",
      "z_sd": 5.04,
      "posterior_beakers": 5,
      "verdict": "ACCEPTED"
    },
    {
      "id": "H3",
      "title": "Parallel Assembly of Ctenophore Syncytial Nerve Nets (12 Innexins + 68 Neuropeptides) vs. Cnidarian/Bilaterian Chemical Synapses Around an Ancestral CaV/NaV & PDZ/SHANK Core",
      "cohorts": 8,
      "kb": 412.0,
      "primary_metric": "CaV/NaV1 DEEA->DEKA/DKEA TM = 0.892 (PDB:6A90); PSD-95 PDZ-3 TM = 0.888 (PDB:1BE9); Innexin octamer TM = 0.876 (PDB:5ZHQ, |J_ij| = 1.542); 0/8 classical transmitter enzymes in Ctenophora",
      "z_sd": 4.95,
      "posterior_beakers": 5,
      "verdict": "ACCEPTED"
    },
    {
      "id": "H4",
      "title": "Falsification of Classical 'Coelenterata' (Ctenophora + Cnidaria) Monophyly and Shared Hox/ParaHox Neurogenic Cascade Hypothesis",
      "cohorts": 8,
      "kb": 280.0,
      "primary_metric": "Coelenterata UFBoot = 1.8% (0/7 shared BCnS fusions); Ctenophora Hox/ParaHox (Gsx, Xlox, Cdx) = 0/4 vs. 3/3 in Cnidaria/Bilateria; ABBA-BABA D = +0.018 (Z = 0.42 null)",
      "z_sd": 1.08,
      "posterior_beakers": 1,
      "verdict": "FALSIFIED (Negative Control)"
    }
  ]
}