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However, whole-brain quantification tools do not yet meet demands for efficiency or assess morphometry. Here we present\n                  <jats:italic>CellPheno<\/jats:italic>\n                  , a 3D nuclei instance segmentation framework for high-throughput cellular phenotyping.\n                  <jats:italic>CellPheno<\/jats:italic>\n                  quantifies an entire P4 mouse brain within 15 hours. We showcase whole-brain morphometry, enhanced stitching, and co-localization across multiple cell types in 53 brains.\n                <\/jats:p>","DOI":"10.64898\/2026.03.17.712391","type":"posted-content","created":{"date-parts":[[2026,3,19]],"date-time":"2026-03-19T22:15:16Z","timestamp":1773958516000},"source":"Crossref","is-referenced-by-count":1,"title":["CellPheno: A High-throughput Computational Platform for Quantifying Cellular Resolution Whole Brain Microscopy Images"],"prefix":"10.64898","author":[{"ORCID":"https:\/\/orcid.org\/0000-0001-6553-4482","authenticated-orcid":false,"given":"Ziquan","family":"Wei","sequence":"first","affiliation":[{"name":"Department of Computer Science, University of North Carolina, Chapel Hill, NC, 27599, USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-6650-7574","authenticated-orcid":false,"given":"Ian","family":"Curtin","sequence":"additional","affiliation":[{"name":"UNC Neuroscience Center, University of North Carolina, Chapel Hill, NC, 27599, USA"},{"name":"Department of Genetics, University of North Carolina, Chapel Hill, NC, 27599, USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Felix A","family":"Kyere","sequence":"additional","affiliation":[{"name":"UNC Neuroscience Center, University of North Carolina, Chapel Hill, NC, 27599, USA"},{"name":"Department of Genetics, University of North Carolina, Chapel Hill, NC, 27599, USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"David","family":"Borland","sequence":"additional","affiliation":[{"name":"RENCI, University of North Carolina at Chapel Hill, 100 Europa Drive, Suite 540, Chapel Hill, NC 27517 USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Hong","family":"Yi","sequence":"additional","affiliation":[{"name":"RENCI, University of North Carolina at Chapel Hill, 100 Europa Drive, Suite 540, Chapel Hill, NC 27517 USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Minjeong","family":"Kim","sequence":"additional","affiliation":[{"name":"Department of Computer Science, University of North Carolina at Greensboro, Greensboro, NC, 27412, USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Mustafa","family":"Dere","sequence":"additional","affiliation":[{"name":"Department of Psychiatry, University of North Carolina, Chapel Hill, NC, 27599, USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Carolyn M","family":"McCormick","sequence":"additional","affiliation":[{"name":"UNC Neuroscience Center, University of North Carolina, Chapel Hill, NC, 27599, USA"},{"name":"Department of Genetics, University of North Carolina, Chapel Hill, NC, 27599, USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Oleh","family":"Krupa","sequence":"additional","affiliation":[{"name":"UNC Neuroscience Center, University of North Carolina, Chapel Hill, NC, 27599, USA"},{"name":"Department of Genetics, University of North Carolina, Chapel Hill, NC, 27599, USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Yen-Yu Ian","family":"Shih","sequence":"additional","affiliation":[{"name":"Center for Animal Magnetic Resonance Imaging, University of North Carolina, Chapel Hill, NC, 27599, USA"},{"name":"Biomedical Research Imaging Center, The University of North Carolina at Chapel Hill; 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