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Integrated spatial transcriptome and metabolism study reveals metabolic heterogeneity in human injured brain

Single-cell transcriptomics can provide quantitative molecular signatures for large, unbiased samples of the diverse cell types in the brain. With the advances of multi-omics datasets, a major challenge is to validate and integrate results into a biological understanding of spatial organization and...

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Autores principales: Zheng, Ping, Zhang, Ning, Ren, Dabin, Yu, Cong, Zhao, Bin, Zhang, Yisong
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Elsevier 2023
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10313933/
https://www.ncbi.nlm.nih.gov/pubmed/37263268
http://dx.doi.org/10.1016/j.xcrm.2023.101057
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author Zheng, Ping
Zhang, Ning
Ren, Dabin
Yu, Cong
Zhao, Bin
Zhang, Yisong
author_facet Zheng, Ping
Zhang, Ning
Ren, Dabin
Yu, Cong
Zhao, Bin
Zhang, Yisong
author_sort Zheng, Ping
collection PubMed
description Single-cell transcriptomics can provide quantitative molecular signatures for large, unbiased samples of the diverse cell types in the brain. With the advances of multi-omics datasets, a major challenge is to validate and integrate results into a biological understanding of spatial organization and functional orientation. Here, we generate spatial transcriptomes and metabolites from six patients with brain trauma with surgical samples. The resulting spatial marker gene, which is highly replicable across analysis methods, sequencing technologies, and modalities, is a comprehensive molecular marker of the diverse metabolic changes in human injured brains. The atlas includes an area of lipid peroxidation that resembles injured neurons in the brain. We further discover imbalanced myo-inositol and myo-inositol phosphate and related spatial markers. Our results highlight the complex transcriptomic regulation and metabolic alterations in the injured brain and will directly enable the design of reagents to target specific genes in the human brain for functional analysis.
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spelling pubmed-103139332023-07-02 Integrated spatial transcriptome and metabolism study reveals metabolic heterogeneity in human injured brain Zheng, Ping Zhang, Ning Ren, Dabin Yu, Cong Zhao, Bin Zhang, Yisong Cell Rep Med Article Single-cell transcriptomics can provide quantitative molecular signatures for large, unbiased samples of the diverse cell types in the brain. With the advances of multi-omics datasets, a major challenge is to validate and integrate results into a biological understanding of spatial organization and functional orientation. Here, we generate spatial transcriptomes and metabolites from six patients with brain trauma with surgical samples. The resulting spatial marker gene, which is highly replicable across analysis methods, sequencing technologies, and modalities, is a comprehensive molecular marker of the diverse metabolic changes in human injured brains. The atlas includes an area of lipid peroxidation that resembles injured neurons in the brain. We further discover imbalanced myo-inositol and myo-inositol phosphate and related spatial markers. Our results highlight the complex transcriptomic regulation and metabolic alterations in the injured brain and will directly enable the design of reagents to target specific genes in the human brain for functional analysis. Elsevier 2023-05-31 /pmc/articles/PMC10313933/ /pubmed/37263268 http://dx.doi.org/10.1016/j.xcrm.2023.101057 Text en © 2023 The Author(s) https://creativecommons.org/licenses/by-nc-nd/4.0/This is an open access article under the CC BY-NC-ND license (http://creativecommons.org/licenses/by-nc-nd/4.0/).
spellingShingle Article
Zheng, Ping
Zhang, Ning
Ren, Dabin
Yu, Cong
Zhao, Bin
Zhang, Yisong
Integrated spatial transcriptome and metabolism study reveals metabolic heterogeneity in human injured brain
title Integrated spatial transcriptome and metabolism study reveals metabolic heterogeneity in human injured brain
title_full Integrated spatial transcriptome and metabolism study reveals metabolic heterogeneity in human injured brain
title_fullStr Integrated spatial transcriptome and metabolism study reveals metabolic heterogeneity in human injured brain
title_full_unstemmed Integrated spatial transcriptome and metabolism study reveals metabolic heterogeneity in human injured brain
title_short Integrated spatial transcriptome and metabolism study reveals metabolic heterogeneity in human injured brain
title_sort integrated spatial transcriptome and metabolism study reveals metabolic heterogeneity in human injured brain
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10313933/
https://www.ncbi.nlm.nih.gov/pubmed/37263268
http://dx.doi.org/10.1016/j.xcrm.2023.101057
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