Version history

{
  "scope": "Whole adult mouse brain (clearing protocol)",
  "claim_text": "CUBIC is a chemical-cocktail whole-brain clearing protocol that supports rapid single-cell-resolution imaging by single-photon microscopy of intact adult mouse brain, providing the methodological substrate for whole-cortex multiplexed counterstaining of cortical activity markers.",
  "raw_fields": {
    "n": 0,
    "doi": "10.1016/j.cell.2014.03.042",
    "claim": "CUBIC is a chemical-cocktail whole-brain clearing protocol that supports rapid single-cell-resolution imaging by single-photon microscopy of intact adult mouse brain, providing the methodological substrate for whole-cortex multiplexed counterstaining of cortical activity markers.",
    "cite_key": "Susaki2014",
    "evidence": "Chemical-cocktail clearing of intact adult mouse brain; single-cell-resolution whole-brain imaging with single-photon microscopy; quantification of stimulus-evoked nuclear activity markers.",
    "effect_size": "single-cell resolution whole-brain imaging in cleared adult mouse",
    "text_access": "abstract_only",
    "study_system": "Whole adult mouse brain (clearing protocol)",
    "argument_role": "supporting",
    "replication_status": "method-paper",
    "claim_source_sentence": "we performed comprehensive chemical screening to develop a whole-brain clearing and imaging method, termed CUBIC (clear, unobstructed brain imaging cocktails and computational analysis). CUBIC is a simple and efficient method involving the immersion of brain samples in chemical mixtures containing aminoalcohols, which enables rapid whole-brain imaging with single-photon excitation microscopy.",
    "source_provenance_status": "non_substring_match",
    "replication_evidence_dois": [],
    "effect_size_source_sentence": "enable the visualization and quantification of neural activities induced by environmental stimulation."
  },
  "section_id": "section_15",
  "source_url": "https://github.com/AllenNeuralDynamics/ComputationalReviewRecurrence/blob/79ce062d54a924ce05953ec90aa9d26044d2b48f/evidence/section_15_evidence_package.json",
  "effect_size": "single-cell resolution whole-brain imaging in cleared adult mouse",
  "review_repo": "ComputationalReviewRecurrence",
  "section_ref": "wiki_page:computationalreviewrecurrence-15-methods-limits",
  "source_kind": "review_finding",
  "source_path": "evidence/section_15_evidence_package.json",
  "source_refs": [
    "paper:paper-622bfe2cb817"
  ],
  "source_span": "we performed comprehensive chemical screening to develop a whole-brain clearing and imaging method, termed CUBIC (clear, unobstructed brain imaging cocktails and computational analysis). CUBIC is a simple and efficient method involving the immersion of brain samples in chemical mixtures containing aminoalcohols, which enables rapid whole-brain imaging with single-photon excitation microscopy.",
  "study_system": "Whole adult mouse brain (clearing protocol)",
  "evidence_refs": [
    {
      "ref": "paper:paper-622bfe2cb817"
    }
  ],
  "section_title": "15. Methodological limits and emerging tools — what current mouse-cortex tools cannot yet measure about E→E recurrence (subthreshold network activity, fast plasticity in vivo, millimetre-scale dynamic connectomes), and what is on the near horizon",
  "source_policy": {
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    "notes": [
      "Local review repositories are read-only inputs.",
      "SciDEX stores paper metadata, structured evidence, file pointers, and short citation contexts; it does not copy full review prose."
    ],
    "source_commit_sha": "79ce062d54a924ce05953ec90aa9d26044d2b48f",
    "source_repository_url": "https://github.com/AllenNeuralDynamics/ComputationalReviewRecurrence"
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  "evidence_summary": "Chemical-cocktail clearing of intact adult mouse brain; single-cell-resolution whole-brain imaging with single-photon microscopy; quantification of stimulus-evoked nuclear activity markers.",
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  "replication_status": "method-paper",
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  "origin_url": "https://github.com/AllenNeuralDynamics/ComputationalReviewRecurrence/blob/79ce062d54a924ce05953ec90aa9d26044d2b48f/evidence/section_15_evidence_package.json",
  "commit_sha": "79ce062d54a924ce05953ec90aa9d26044d2b48f",
  "created_by": "persona-jerome-lecoq-gbo-neuroscience",
  "repository_url": "https://github.com/AllenNeuralDynamics/ComputationalReviewRecurrence"
}