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However, the regional organization of diurnal transcription in the healthy and diseased brain remains poorly defined. Using large-scale spatial transcriptomics, we mapped 24-hour rhythmic transcription across cortical and subcortical regions of the mouse brain. We identified marked regional differences in rhythmicity, including distinct oscillatory signatures across cortical areas and along the rostro\u2013caudal axis. In the APP23 mouse model of AD, pathology-vulnerable brain regions exhibited early, region-specific disruption of diurnal transcription prior to substantial amyloid plaque deposition. These findings reveal a spatially organized architecture of brain diurnal rhythms and identify early rhythmic dysregulation as a feature of Alzheimer\u2019s disease pathogenesis.<\/jats:p>","DOI":"10.64898\/2026.01.26.701799","type":"posted-content","created":{"date-parts":[[2026,1,28]],"date-time":"2026-01-28T23:40:14Z","timestamp":1769643614000},"source":"Crossref","is-referenced-by-count":4,"title":["Spatial transcriptomics reveals brain-wide circadian disruption in an Alzheimer\u2019s disease model"],"prefix":"10.64898","author":[{"ORCID":"https:\/\/orcid.org\/0000-0002-3776-6400","authenticated-orcid":false,"given":"Alon","family":"Gelber","sequence":"first","affiliation":[{"name":"Department of Bioengineering, University of California San Diego; La Jolla, United States"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Haylie","family":"Romero","sequence":"additional","affiliation":[{"name":"Department of Neuroscience, University of California San Diego; La Jolla, United States"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-5728-1574","authenticated-orcid":false,"given":"Dominic","family":"Burrows","sequence":"additional","affiliation":[{"name":"Department of Cognitive Science, University of California San Diego; La Jolla, United States"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-4293-5192","authenticated-orcid":false,"given":"Daniel S.","family":"Whittaker","sequence":"additional","affiliation":[{"name":"Department of Neuroscience, University of California San Diego; La Jolla, United States"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Daniel","family":"Carlin","sequence":"additional","affiliation":[{"name":"Department of Neuroscience, University of California San Diego; La Jolla, United States"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-3203-9535","authenticated-orcid":false,"given":"Eran A.","family":"Mukamel","sequence":"additional","affiliation":[{"name":"Department of Cognitive Science, University of California San Diego; La Jolla, United States"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-4758-4280","authenticated-orcid":false,"given":"Paula","family":"Desplats","sequence":"additional","affiliation":[{"name":"Department of Neuroscience, University of California San Diego; La Jolla, United States"},{"name":"Center for Circadian Biology, University of California San Diego; La Jolla, United States"}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"54368","reference":[{"key":"2026020510520204000_2026.01.26.701799v1.1","first-page":"31","article-title":"Circadian regulation of synaptic plasticity","volume":"5","year":"2016","journal-title":"Biology (Basel)"},{"key":"2026020510520204000_2026.01.26.701799v1.2","doi-asserted-by":"crossref","unstructured":"K. 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