Hu, Thomas, Allam, Mayar, Cai, Shuangyi, Henderson, Walter, Yueh, Brian, Garipcan, Aybuke, Ievlev, Anton V, Afkarian, Maryam, Beyaz, Semir, Coskun, Ahmet F (December 2023) Single-cell spatial metabolomics with cell-type specific protein profiling for tissue systems biology. Nature Communications, 14 (1). p. 8260. ISSN 2041-1723
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Abstract
Metabolic reprogramming in cancer and immune cells occurs to support their increasing energy needs in biological tissues. Here we propose Single Cell Spatially resolved Metabolic (scSpaMet) framework for joint protein-metabolite profiling of single immune and cancer cells in male human tissues by incorporating untargeted spatial metabolomics and targeted multiplexed protein imaging in a single pipeline. We utilized the scSpaMet to profile cell types and spatial metabolomic maps of 19507, 31156, and 8215 single cells in human lung cancer, tonsil, and endometrium tissues, respectively. The scSpaMet analysis revealed cell type-dependent metabolite profiles and local metabolite competition of neighboring single cells in human tissues. Deep learning-based joint embedding revealed unique metabolite states within cell types. Trajectory inference showed metabolic patterns along cell differentiation paths. Here we show scSpaMet's ability to quantify and visualize the cell-type specific and spatially resolved metabolic-protein mapping as an emerging tool for systems-level understanding of tissue biology.
| Item Type: | Paper |
|---|---|
| Subjects: | diseases & disorders diseases & disorders > neoplasms organs, tissues, organelles, cell types and functions > cell types and functions > cell types organs, tissues, organelles, cell types and functions > cell types and functions > cell types organs, tissues, organelles, cell types and functions > cell types and functions > cell types organs, tissues, organelles, cell types and functions > cell types and functions organs, tissues, organelles, cell types and functions |
| CSHL Authors: | |
| Communities: | CSHL labs > Beyaz lab CSHL Cancer Center Program CSHL Cancer Center Program > Cancer Genetics and Genomics Program |
| SWORD Depositor: | CSHL Elements |
| Depositing User: | CSHL Elements |
| Date: | 13 December 2023 |
| Date Deposited: | 20 Dec 2023 19:17 |
| Last Modified: | 30 Apr 2024 18:46 |
| PMCID: | PMC10716522 |
| Related URLs: | |
| URI: | https://repository.cshl.edu/id/eprint/41340 |
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