Breschi, A., Muñoz-Aguirre, M., Wucher, V., Davis, C. A., Garrido-Martín, D., Djebali, S., Gillis, J., Pervouchine, D. D., Vlasova, A., Dobin, A., Zaleski, C., Drenkow, J., Danyko, C., Scavelli, A., Reverter, F., Snyder, M. P., Gingeras, T. R., Guigó, R. (July 2020) A limited set of transcriptional programs define major cell types. Genome Res, 30 (7). pp. 1047-1059. ISSN 1088-9051 (Print)1088-9051
Abstract
We have produced RNA sequencing data for 53 primary cells from different locations in the human body. The clustering of these primary cells reveals that most cells in the human body share a few broad transcriptional programs, which define five major cell types: epithelial, endothelial, mesenchymal, neural, and blood cells. These act as basic components of many tissues and organs. Based on gene expression, these cell types redefine the basic histological types by which tissues have been traditionally classified. We identified genes whose expression is specific to these cell types, and from these genes, we estimated the contribution of the major cell types to the composition of human tissues. We found this cellular composition to be a characteristic signature of tissues and to reflect tissue morphological heterogeneity and histology. We identified changes in cellular composition in different tissues associated with age and sex, and found that departures from the normal cellular composition correlate with histological phenotypes associated with disease.
| Item Type: | Paper |
|---|---|
| Additional Information: | 1549-5469 Breschi, Alessandra Muñoz-Aguirre, Manuel Wucher, Valentin Davis, Carrie A Garrido-Martín, Diego Djebali, Sarah Gillis, Jesse Pervouchine, Dmitri D Vlasova, Anna Dobin, Alexander Zaleski, Chris Drenkow, Jorg Danyko, Cassidy Scavelli, Alexandra Reverter, Ferran Snyder, Michael P Gingeras, Thomas R Guigó, Roderic R01 MH101814/MH/NIMH NIH HHS/United States U41 HG007234/HG/NHGRI NIH HHS/United States U54 HG007004/HG/NHGRI NIH HHS/United States Journal Article Genome Res. 2020 Jul;30(7):1047-1059. doi: 10.1101/gr.263186.120. Epub 2020 Jul 29. |
| Subjects: | bioinformatics > genomics and proteomics > genetics & nucleic acid processing > DNA, RNA structure, function, modification > transcription Investigative techniques and equipment > cell lineage tracing 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 |
| CSHL Authors: | |
| Communities: | CSHL Cancer Center Program > Cancer Genetics and Genomics Program CSHL Cancer Center Program > Gene Regulation and Inheritance Program CSHL labs > Gingeras lab CSHL labs > Dobin Lab |
| Depositing User: | Matthew Dunn |
| Date: | July 2020 |
| Date Deposited: | 02 Oct 2020 19:25 |
| Last Modified: | 19 Aug 2024 14:50 |
| PMCID: | PMC7397875 |
| Related URLs: | |
| URI: | https://repository.cshl.edu/id/eprint/39729 |
Actions (login required)
 |
Administrator's edit/view item |