Evidence map›Paper›PMID 42660991›Full record

ArticleNature methods2026

All-optical multimodal mapping of single-cell-type-specific metabolic activities via REDCAT.

Yajuan Li, Zhaojun Zhang, Archibald Enninful, Negin Farzad, Presha Rajbhandari, Hua Tian, Jungmin Nam, Xiaoyu Qin, Jorge Villazon, Anthony A Fung and 8 more

Abstract read
In one paragraph

Article in Nature methods, 2026. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 7 papers.

0numbers the graph read from it
0cells of the map it votes in
7citing papers in PubMed
–field-weighted citation impact
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

7 citing papers in PubMed.

  1. Review
  2. Article
  3. Article
  4. Article
  5. Review
  6. Review
  7. Review
4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

18 authors.

Yajuan Li *Shu Chien-Gene Lay Department of Bioengineering, University of California, University of California, San Diego, La Jolla, CA, USA.
Zhaojun Zhang *Department of Statistics and Data Science, Wharton School, University of Pennsylvania, Philadelphia, PA, USA.
Archibald Enninful *Department of Biomedical Engineering, Yale University, New Haven, CT, USA.
Negin FarzadDepartment of Biomedical Engineering, Yale University, New Haven, CT, USA.
Presha RajbhandariDepartment of Chemistry, Columbia University, New York, NY, USA.
Hua TianEnvironmental and Occupational Health, Pitt Public Health, Pittsburgh, PA, USA.
Jungmin NamDepartment of Biomedical Engineering, Yale University, New Haven, CT, USA.ORCID http://orcid.org/0000-0002-6717-1328
Xiaoyu QinDepartment of Biomedical Engineering, Yale University, New Haven, CT, USA.
Jorge VillazonShu Chien-Gene Lay Department of Bioengineering, University of California, University of California, San Diego, La Jolla, CA, USA.
Anthony A FungDepartment of Biomedical Engineering, Yale University, New Haven, CT, USA.ORCID http://orcid.org/0000-0003-1631-7451
Hongje JangShu Chien-Gene Lay Department of Bioengineering, University of California, University of California, San Diego, La Jolla, CA, USA.
Zhiliang BaiDepartment of Biomedical Engineering, Yale University, New Haven, CT, USA.ORCID http://orcid.org/0000-0002-3977-3057
Nancy R ZhangDepartment of Statistics and Data Science, Wharton School, University of Pennsylvania, Philadelphia, PA, USA.ORCID http://orcid.org/0000-0002-0880-5749
Brent R StockwellDepartment of Chemistry, Columbia University, New York, NY, USA.ORCID http://orcid.org/0000-0002-3532-3868
Rong FanDepartment of Biomedical Engineering, Yale University, New Haven, CT, USA. rong.fan@yale.edu.ORCID http://orcid.org/0000-0001-7805-8059
Mina L XuDepartment of Pathology, Yale School of Medicine, New Haven, CT, USA. mina.xu@yale.edu.ORCID http://orcid.org/0000-0001-9513-245X
Zongming MaDepartment of Statistics and Data Science, Yale University, New Haven, CT, USA. zongming.ma@yale.edu.ORCID http://orcid.org/0000-0003-2401-0177
Lingyan ShiShu Chien-Gene Lay Department of Bioengineering, University of California, University of California, San Diego, La Jolla, CA, USA. l2shi@ucsd.edu.ORCID http://orcid.org/0000-0003-1373-3206

Funding

HIPC Data Coordinating CenterU01AI167892 · NIAID · LA JOLLA INSTITUTE FOR IMMUNOLOGY · PI Steven H. Kleinstein, Bjoern Peters · 2022 to 2026
$18.7M
Spatiotemporal Tumor Analytics for Guiding Sequential Targeted-Inhibitor: Immunotherapy Combinations (ST-Analytics)U54CA274509 · NCI · INSTITUTE FOR SYSTEMS BIOLOGY · PI Rong Fan · 2022 to 2026
$15.6M
Tech Core 2U54CA268083 · NCI · JOHNS HOPKINS UNIVERSITY · PI Denis Wirtz, Laura DeLong Wood · 2022 to 2026
$10.2M
The Human Lung BioMolecular Multi-Scale Atlas Program (HuBMAP-Lung)U54HL165443 · NHLBI · UNIVERSITY OF ROCHESTER · PI PRYHUBER, GLORIA S · 2022 to 2025
$8.0M
Kidney single cell and spatial molecular atlas project - KIDSSMAPU54DK134301 · NIDDK · WASHINGTON UNIVERSITY · PI ASHKAR, TAREK MAURICE, JAIN, SANJAY · 2022 to 2025
$7.8M
Yale TMC for Cellular Senescence in Lymphoid OrgansU54AG076043 · NIA · YALE UNIVERSITY · PI HALENE, STEPHANIE · 2021 to 2025
$7.0M
Yale Murine-TMC on Immune Cell Senescence Derived InflammationU54AG079759 · NIA · YALE UNIVERSITY · PI KLUGER, YUVAL · 2022 to 2025
$6.5M
High-throughput in vivo and in vitro functional and multi-omics screens of neuropsychiatric and neurodevelopmental disorder risk genesRM1MH132648 · NIMH · YALE UNIVERSITY · PI Kristen Jennifer Brennand, Rong Fan · 2023 to 2026
$5.6M
Center for Human Lymphoma Spatiotemporal Atlas (HuLymSTA)U01CA294514 · NCI · YALE UNIVERSITY · PI FAN, RONG, HALENE, STEPHANIE · 2024 to 2025
$5.1M
Highly scalable and sensitive spatial transcriptomic and epigenomic sequencing of brain tissues from human and non-human primateRF1MH128876 · NIMH · YALE UNIVERSITY · PI FAN, RONG, SESTAN, NENAD · 2021 to 2021
$2.9M
High-resolution High-speed Photoacoustic and Ultrasound Imaging of SmallVessel Functions in Ischemic StrokeR01NS111039 · NINDS · DUKE UNIVERSITY · PI YAO, JUNJIE · 2019 to 2023
$2.7M
Ex vivo analysis of human brain tumor cells in a microvascular niche modelR01CA245313 · NCI · YALE UNIVERSITY · PI FAN, RONG, ZHOU, JIANGBING · 2020 to 2024
$2.6M
NCI NIH HHS R01 CA245313NCI NIH HHS U01 CA294514NCI NIH HHS U54 CA268083NCI NIH HHS U54 CA274509NCI NIH HHS UH3 CA257393NHLBI NIH HHS U54 HL165443NIAID NIH HHS U01 AI167892NIA NIH HHS U54 AG076043NIA NIH HHS U54 AG079759NIDDK NIH HHS U54 DK134301NIGMS NIH HHS R01 GM149976NIMH NIH HHS RF1 MH128876NIMH NIH HHS RM1 MH132648NINDS NIH HHS R01 NS111039NINDS NIH HHS R21 NS125395U.S. Department of Health & Human Services | National Institutes of Health (NIH) 5R01NS111039U.S. Department of Health & Human Services | National Institutes of Health (NIH) R01CA245313U.S. Department of Health & Human Services | National Institutes of Health (NIH) R01GM149976U.S. Department of Health & Human Services | National Institutes of Health (NIH) R21NS125395U.S. Department of Health & Human Services | National Institutes of Health (NIH) RF1MH128876U.S. Department of Health & Human Services | National Institutes of Health (NIH) RM1MH132648U.S. Department of Health & Human Services | National Institutes of Health (NIH) U01AI167892U.S. Department of Health & Human Services | National Institutes of Health (NIH) U01CA294514U.S. Department of Health & Human Services | National Institutes of Health (NIH) U54AG076043U.S. Department of Health & Human Services | National Institutes of Health (NIH) U54AG079759U.S. Department of Health & Human Services | National Institutes of Health (NIH) U54CA268083U.S. Department of Health & Human Services | National Institutes of Health (NIH) U54CA274509U.S. Department of Health & Human Services | National Institutes of Health (NIH) U54DK134301U.S. Department of Health & Human Services | National Institutes of Health (NIH) U54HL165443U.S. Department of Health & Human Services | National Institutes of Health (NIH) UH3CA257393
6 · The paper itself

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.

Indexed as

Single-Cell AnalysisSpectrum Analysis, RamanAnimalsHumansLiverLymph NodesLymphomaMetabolic ReprogrammingMice

Identifiers

PMID42660991
PMCPMC13541623

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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.