{ "abstract": "Metabolism is fundamental to cell function, yet its activities vary across tissue environments. Resolving these processes in situ at single-cell resolution is crucial for understanding physiology in health and disease. However, existing methods lack biochemical specificity or direct linkage to cell identity. Here we report a method, Raman Enhanced Delineation of Cell Atlases in Tissues (REDCAT), an all-optical platform integrating Raman scattering microscopy and high-plex immunofluorescence to co-map metabolism and cell types. REDCAT achieves subcellular profiling of protein, lipid, nuclear metabolites and redox metabolism in human tissues. In lymph nodes, it revealed cell-type-specific metabolic specialization. In lymphoma, REDCAT uncovered profound reprogramming and transitional states during tumor transformation. In the liver, it resolved zonation-dependent metabolic gradients. By linking cell identity to spatial metabolic states, REDCAT provides a framework for studying immunity and cancer, offering a path to deciphering the metabolic basis of disease.", "abstract_shown": true, "affiliations": [ "Shu Chien-Gene Lay Department of Bioengineering, University of California, University of California, San Diego, La Jolla, CA, USA", "Department of Statistics and Data Science, Wharton School, University of Pennsylvania, Philadelphia, PA, USA", "Department of Biomedical Engineering, Yale University, New Haven, CT, USA", "Department of Biological Sciences, Columbia University, New York, NY, USA", "Department of Chemistry, Columbia University, New York, NY, USA", "Children's Neuroscience Institute, School of Medicine, Pittsburgh, PA, USA", "Environmental and Occupational Health, Pitt Public Health, Pittsburgh, PA, USA", "Department of Pathology and Cell Biology, Columbia University Irving Medical Center, New York, NY, USA", "Herbert Irving Comprehensive Cancer Center, Columbia University Irving Medical Center, New York, NY, USA", "Department of Biomedical Engineering, Yale University, New Haven, CT, USA. rong.fan@yale.edu", "Department of Pathology, Yale School of Medicine, New Haven, CT, USA. rong.fan@yale.edu", "Yale Cancer Center, Yale School of Medicine, New Haven, CT, USA. rong.fan@yale.edu", "Yale Center for Research on Aging (Y-Age), Yale School of Medicine, New Haven, CT, USA. rong.fan@yale.edu", "Yale Stem Cell Center, Yale School of Medicine, New Haven, CT, USA. rong.fan@yale.edu", "Department of Pathology, Yale School of Medicine, New Haven, CT, USA. mina.xu@yale.edu", "Yale Cancer Center, Yale School of Medicine, New Haven, CT, USA. mina.xu@yale.edu", "Department of Statistics and Data Science, Yale University, New Haven, CT, USA. zongming.ma@yale.edu", "Shu Chien-Gene Lay Department of Bioengineering, University of California, University of California, San Diego, La Jolla, CA, USA. l2shi@ucsd.edu" ], "article_type": null, "arxiv": null, "author_total": 18, "authors": [ { "affs": [ 0 ], "name": "Yajuan Li", "orcid": "0000-0003-2328-6956" }, { "affs": [ 1 ], "name": "Zhaojun Zhang", "orcid": "0000-0001-6518-0207" }, { "affs": [ 2 ], "name": "Archibald Enninful", "orcid": "0000-0002-6350-6530" }, { "affs": [ 2 ], "name": "Negin Farzad", "orcid": "0009-0002-5391-9363" }, { "affs": [ 3, 4 ], "name": "Presha Rajbhandari", "orcid": "0000-0003-2184-7238" }, { "affs": [ 5, 6 ], "name": "Hua Tian" }, { "affs": [ 2 ], "name": "Jungmin Nam", "orcid": "0000-0002-6717-1328" }, { "affs": [ 2 ], "name": "Xiaoyu Qin" }, { "affs": [ 0 ], "name": "Jorge I. Villazon", "orcid": "0009-0006-8296-5894" }, { "affs": [ 2 ], "name": "Anthony A. Fung", "orcid": "0000-0003-1631-7451" }, { "affs": [ 0 ], "name": "Hongje Jang", "orcid": "0000-0003-3987-2538" }, { "affs": [ 2 ], "name": "Zhiliang Bai", "orcid": "0000-0002-3977-3057" }, { "affs": [ 1 ], "name": "Nancy Ruonan Zhang", "orcid": "0000-0002-0880-5749" }, { "affs": [ 3, 4, 7, 8 ], "name": "Brent R. Stockwell", "orcid": "0000-0002-3532-3868" }, { "affs": [ 9, 10, 11, 12, 13 ], "name": "Rong Fan", "orcid": "0000-0001-7805-8059" }, { "affs": [ 14, 15 ], "name": "Mina L. Xu", "orcid": "0000-0001-9513-245X" }, { "affs": [ 16 ], "name": "Zongming Ma", "orcid": "0000-0003-2401-0177" }, { "affs": [ 17 ], "name": "Lingyan Shi", "orcid": "0000-0003-1373-3206" } ], "bibtex": "https://research.draconitic.com/paper/evd655r0r5a7x.bib", "cited_by": 6, "doi": "10.1038/s41592-026-03180-0", "fulltext_url": null, "id": "evd655r0r5a7x", "issns": [ "1548-7091", "1548-7105" ], "landing_url": "https://doi.org/10.1038/s41592-026-03180-0", "language": "en", "licence": "CC-BY", "licence_label": "CC BY", "licence_source": "journal", "licence_url": "https://creativecommons.org/licenses/by/4.0/", "metadata_licence": null, "native_subjects": [ [ "openalex", "1304|Spectroscopy Techniques in Biomedical and Chemical Research" ] ], "openalex": "W4404245656", "pdf_url": null, "pmcid": "PMC12632379", "pmid": "41279550", "published": "2026-08-27", "publisher": "Nature Portfolio", "ris": "https://research.draconitic.com/paper/evd655r0r5a7x.ris", "sources": [ { "first_seen": "2026-10-30T13:26:48Z", "native_id": "W4404245656", "source": "openalex", "url": "https://doi.org/10.1038/s41592-026-03180-0" } ], "subjects": [ { "field": "biochemistry", "origin": "openalex:1304|Spectroscopy Techniques in Biomedical and Chemical Research", "subfield": "biophysics" } ], "title": "All-optical multimodal mapping of single-cell-type-specific metabolic activities via REDCAT", "title_text": "All-optical multimodal mapping of single-cell-type-specific metabolic activities via REDCAT", "type": "peer-reviewed", "updated_at": "2026-11-03T13:20:30Z", "url": "https://research.draconitic.com/paper/evd655r0r5a7x", "venue": "Nature Methods", "versions": [] }