A TRAP2-c-Fos pipeline genetically marking active mouse neurons at four times o…

A TRAP2-c-Fos pipeline genetically marking active mouse neurons at four times of day combined with 3D imaging and spatial-transcriptomic-informed cell typing revealed region- and layer-specific activation including end-of-dark-period activation of layer-5 neurons, a brain-wide E/I-balance shift especially in thalamus, and a switch of network hubs from subcortical to cortical default-mode regions across the wake period.

{
  "n": 0,
  "doi": "10.1371/journal.pbio.3003472",
  "claim": "A TRAP2-c-Fos pipeline genetically marking active mouse neurons at four times of day combined with 3D imaging and spatial-transcriptomic-informed cell typing revealed region- and layer-specific activation including end-of-dark-period activation of layer-5 neurons, a brain-wide E/I-balance shift especially in thalamus, and a switch of network hubs from subcortical to cortical default-mode regions across the wake period.",
  "cite_key": "Sun2025b",
  "evidence": "c-Fos TRAP2 at 4 time points + 3D imaging + spatial transcriptomics; network-modularity analysis.",
  "effect_size": "end-of-dark-period L5 activation; brain-wide E/I shift in thalamus; hub switch to cortical DMN",
  "text_access": "fulltext",
  "study_system": "Mouse whole-brain c-Fos TRAP2 across day",
  "argument_role": "supporting",
  "replication_status": "single-study",
  "claim_source_sentence": "Applying this pipeline, we observe region and layer-specific activation of neurons in the cortex, especially activation of layer five neurons at the end of the dark (wake) period. We also observe a shift in the balance of excitatory (glutamatergic) neurons versus inhibitory (GABAergic) neurons across the whole brain, especially in the thalamus. Moreover, as the dark (wake) period progresses, the network formed by the active neurons becomes less modular, and the hubs switch from subcortical regions, such as the posterior hypothalamic nucleus, to cortical regions in the default mode network.",
  "source_provenance_status": "ok",
  "replication_evidence_dois": [],
  "effect_size_source_sentence": "as the dark (wake) period progresses, the network formed by the active neurons becomes less modular, and the hubs switch from subcortical regions, such as the posterior hypothalamic nucleus, to cortical regions in the default mode network."
}

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Applying this pipeline, we observe region and layer-specific activation of neurons in the cortex, especially activation of layer five neurons at the end of the dark (wake) period. We also observe a shift in the balance of excitatory (glutamatergic) neurons versus inhibitory (GABAergic) neurons across the whole brain, especially in the thalamus. Moreover, as the dark (wake) period progresses, the network formed by th...

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