Version history

{
  "kind": "infographic",
  "prompt": "4. Translaminar excitatory loops in mouse — L4→L2/3→L5→L6→L4 within the column; asymmetry of forward and backward intracortical projections figure 3",
  "provider": "other",
  "raw_fields": {
    "axes": {
      "x": "source layer (L2/3, L5, L6)",
      "y": "fraction of retrogradely labeled cortico-cortical neurons"
    },
    "datasets": [
      {
        "doi": "10.7554/elife.100478",
        "method": "retro-AAV from each target area, layer-resolved counting, NTSR1-Cre to subtract L6 CT",
        "system": "mouse VISp, SSp-bfd, MOp",
        "value_summary": "L6 (corticocortical, non-NTSR1) dominates the majority of source areas, followed by L5; L2/3 dominates only a small fraction.",
        "claim_source_sentence": "When pooled across target areas, we find that the majority of projection source areas display L6 dominance, followed by L5 with only a small fraction of areas exhibiting L2/3 dominance (, p < 0.05, one-way ANOVA, Tukey–Kramer multiple comparison correction)."
      },
      {
        "doi": "10.1002/cne.70111",
        "method": "projection- and layer-specific rabies tracing onto FF and FB cortico-cortical neurons in L2/3 and L5",
        "system": "mouse VISl (secondary visual cortex)",
        "value_summary": "Both FF and FB types receive majority input from VISp; proportions of inputs from specific visual, retrosplenial and auditory cortices differ between FF and FB.",
        "claim_source_sentence": "Overall, long-distance input patterns for these FF and FB neurons were largely similar, as all received the majority of their inputs from VISp."
      },
      {
        "doi": "10.1016/j.neuron.2025.10.019",
        "method": "single-axon reconstruction of ~20,000 cortical neurons",
        "system": "whole mouse cortex (single-neuron projectomes)",
        "value_summary": "346 projection-defined subtypes with region- and layer-specific distributions; seven cortico-cortical modules with submodular organization.",
        "claim_source_sentence": "Here, we reconstructed the projectomes of nearly 20,000 neurons in the whole mouse cortex, identifying 346 projection-defined subtypes with region- and layer-specific distributions."
      }
    ],
    "audit_issues": [
      {
        "dimension": "metric_definition",
        "description": "Studies report 'fraction of retrogradely labelled cells by layer' (eLife 100478), 'majority input source areas' (rabies, J Comp Neurol 70111), and 'projection-defined subtype counts across cortex' (Yan/Neuron 2025). The first is a fraction by source layer; the second a fraction by source area; the third a subtype catalogue. They cannot share a y-axis of 'fraction of source-layer cells'.",
        "entries_affected": [
          "10.7554/elife.100478",
          "10.1002/cne.70111",
          "10.1016/j.neuron.2025.10.019"
        ]
      },
      {
        "dimension": "scope_population",
        "description": "Retrograde from target area (counts source neurons) vs. monosynaptic rabies from a defined postsynaptic class (counts presynaptic input neurons) vs. single-neuron projectome reconstruction (counts whole-axon morphologies). Population denominators differ.",
        "entries_affected": [
          "10.7554/elife.100478",
          "10.1002/cne.70111",
          "10.1016/j.neuron.2025.10.019"
        ]
      }
    ],
    "audit_verdict": "CAVEAT",
    "figure_concept": "Layer of origin for cortico-cortical input onto primary sensory and motor cortex (mouse): infragranular dominance",
    "interpretation_note": "Across multiple recent mouse studies, the dominant source layer of long-range cortico-cortical input is not L2/3 (supragranular) but the infragranular L5/L6 compartment — refining the textbook supragranular-feedforward / infragranular-feedback dichotomy.",
    "mandatory_caption_caveats": [
      "Rows use different denominators (cell-counts in target-injected retrograde vs. rabies-traced presynaptic cells onto a defined class vs. whole-axon morphologies); 'fraction by source layer' is not strictly defined the same way across rows."
    ]
  },
  "section_id": "section_04",
  "source_url": "https://github.com/AllenNeuralDynamics/ComputationalReviewRecurrence/blob/79ce062d54a924ce05953ec90aa9d26044d2b48f/evidence/section_04_evidence_package.json",
  "target_ref": "wiki_page:computationalreviewrecurrence-04-translaminar",
  "review_repo": "ComputationalReviewRecurrence",
  "section_ref": "wiki_page:computationalreviewrecurrence-04-translaminar",
  "source_path": "evidence/section_04_evidence_package.json",
  "source_refs": [],
  "section_title": "4. Translaminar excitatory loops in mouse — L4→L2/3→L5→L6→L4 within the column; asymmetry of forward and backward intracortical projections",
  "source_policy": {
    "mode": "public_source_pointer_with_short_context",
    "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"
  },
  "generation_status": "complete",
  "review_bundle_ref": "analysis_bundle:ab-d9c479db9be9",
  "origin_url": "https://github.com/AllenNeuralDynamics/ComputationalReviewRecurrence/blob/79ce062d54a924ce05953ec90aa9d26044d2b48f/evidence/section_04_evidence_package.json",
  "commit_sha": "79ce062d54a924ce05953ec90aa9d26044d2b48f",
  "created_by": "persona-jerome-lecoq-gbo-neuroscience",
  "repository_url": "https://github.com/AllenNeuralDynamics/ComputationalReviewRecurrence"
}