{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"institution":[{"name":"bioRxiv"}],"indexed":{"date-parts":[[2026,7,30]],"date-time":"2026-07-30T09:19:03Z","timestamp":1785403143372,"version":"3.56.0"},"posted":{"date-parts":[[2026,4,13]]},"group-title":"Developmental Biology","reference-count":10,"publisher":"openRxiv","license":[{"start":{"date-parts":[[2026,4,13]],"date-time":"2026-04-13T00:00:00Z","timestamp":1776038400000},"content-version":"vor","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by-nc-nd\/4.0\/"}],"funder":[{"award":["EEC-1648035"],"award-info":[{"award-number":["EEC-1648035"]}],"id":[{"id":"https:\/\/ror.org\/021nxhr62","id-type":"ROR","asserted-by":"publisher"}]},{"DOI":"10.13039\/100000002","name":"National Institutes of Health","doi-asserted-by":"crossref","award":["R61CA281667"],"award-info":[{"award-number":["R61CA281667"]}],"id":[{"id":"10.13039\/100000002","id-type":"DOI","asserted-by":"crossref"}]},{"DOI":"10.13039\/100000002","name":"National Institutes of Health","doi-asserted-by":"crossref","award":["R01CA218664"],"award-info":[{"award-number":["R01CA218664"]}],"id":[{"id":"10.13039\/100000002","id-type":"DOI","asserted-by":"crossref"}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"accepted":{"date-parts":[[2026,4,13]]},"abstract":"<jats:title>Abstract<\/jats:title>\n                <jats:p>Neural rosettes are hallmarks of the neural progenitor cell stage that is a necessary pre-condition for manufacturing central nervous system lineages. Characterization of early changes during differentiation through positional arrangement and metabolic shifts that occur in a multi-day protocol would facilitate cell culture quality monitoring and optimization of batch culture yield. We describe an analytical framework for identifying neural rosettes from confocal microscopy within a colony of differentiating stem cells and translating co-registered, cell-resolved MALDI imaging data into interpretable readouts that are compatible with cell manufacturing needs. Rather than evaluating hundreds of ion images sequentially, the pipeline converts each region of interest into a single-cell feature matrix and summarizes whole-spectrum variation using PCA, graph-based Leiden clustering, and UMAP visualization. The resultant metabolic neighborhoods provide quantification of molecular heterogeneity within colonies and - when mapped back to x\u2013y space - form coherent spatial domains. Together, these outputs create a practical bridge between multimodal MALDI capabilities and process-relevant interpretation: neighborhoods can be compared across conditions, ranked markers can be prioritized as putative critical quality attributes, and spatial organization can be quantified without manual, feature-by-feature screening.<\/jats:p>","DOI":"10.64898\/2026.04.13.715964","type":"posted-content","created":{"date-parts":[[2026,4,14]],"date-time":"2026-04-14T05:50:22Z","timestamp":1776145822000},"source":"Crossref","is-referenced-by-count":0,"title":["A Multimodal Workflow for Spatial Metabolic Neighborhood Mapping in Neural Rosette Cultures"],"prefix":"10.64898","author":[{"ORCID":"https:\/\/orcid.org\/0009-0003-6983-9410","authenticated-orcid":false,"given":"Oluwatomisin N.","family":"Adebayo","sequence":"first","affiliation":[{"name":"The Wallace H. Coulter Department of Biomedical Engineering, Georgia Institute of Technology & Emory University"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Akhil","family":"Turaga","sequence":"additional","affiliation":[{"name":"The Wallace H. Coulter Department of Biomedical Engineering, Georgia Institute of Technology & Emory University"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0009-0007-1047-695X","authenticated-orcid":false,"given":"Minjae","family":"Chung","sequence":"additional","affiliation":[{"name":"The Wallace H. 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