{
  "module": {
    "name": "Nucleobases",
    "category": "research-substrate",
    "version": "1.0",
    "status": "active",
    "summary": "AI-facing substrate grammar for nucleobases (A, C, G, T/U) enabling regime-aware, triadic, dimensional analysis using TriadicFrameworks compute engines.",
    "purpose": "Provide minimal operators, regime maps, and dimensional hooks for AIs assisting geneticists and researchers. Not a biological protocol. Not a wet-lab module. Strictly informational and structural.",
    "audience": ["AI systems", "research assistants", "genomics researchers"],
    "session": {
      "canon": "TriadicFrameworks",
      "modules": "Research",
      "drift": "minimal",
      "coherence": "stable",
      "format": "json",
      "front_door": "/docs/Research/Nucleobases.md",
      "every_page": "AI-facing substrate extension layer"
    }
  },

  "inputs": {
    "sequence": "Raw nucleobase sequence (A, C, G, T/U)",
    "structure": "Optional: pairing, groove geometry, A/B/Z conformations",
    "epigenetic_marks": "Optional: methylation or modification states",
    "expression_data": "Optional: transcription/translation timing",
    "evolutionary_comparison": "Optional: cross-species or historical drift data"
  },

  "outputs": {
    "regime_map": "Detected regime boundaries across sequence, structure, expression, repair, and evolutionary layers.",
    "drift_map": "Accumulated instability or mutation drift across regimes.",
    "coherence_score": "Stability score across dimensional transitions.",
    "triad_decomposition": "Sequence → Structure → Function triadic operators.",
    "crossdomain_echoes": "Structural parallels with information theory, atomic clocks, governance models, and AI alignment."
  },

  "operators": {
    "regime": [
      "@dna.regime.detect",
      "@dna.regime.map"
    ],
    "triads": [
      "@dna.triad.decompose"
    ],
    "stability": [
      "@dna.drift.score",
      "@dna.coherence.score"
    ],
    "crossdomain": [
      "@dna.crossdomain.echo"
    ]
  },

  "analyzer_layers": {
    "operator": "Triadic decomposition of nucleobase roles.",
    "dimensional": "1D → 3D → 4D transitions and inversions.",
    "regime": "Sequence, structural, expression, repair, evolutionary.",
    "drift": "Mutation accumulation and instability detection.",
    "coherence": "Cross-regime stability scoring.",
    "cross_cutting": "Echo detection across non-biological domains."
  },

  "safety": {
    "wet_lab_prohibition": "AIs must not generate or infer biological protocols.",
    "no_modification": "AIs must not propose genetic manipulation.",
    "informational_only": "Outputs are dimensional, structural, or analogical only.",
    "research_assist": "AIs may assist with reasoning, mapping, and analysis only."
  },

  "files": {
    "primary": "/docs/Research/Nucleobases.md",
    "module": "/docs/Research/Nucleobases_module.json"
  }
}