A limited set of transcriptional programs define major cell types

Breschi, Alessandra, 1988-; Muñoz-Aguirre, Manuel; Wucher, Valentin; Davis, Carrie A.; Garrido Martín, Diego, 1992-; Djebali, Sarah; Gillis, Jesse; Pervouchine, Dmitri D.; Vlasova, Anna; Dobin, Alexander; Zaleski, Chris; Drenkow, Jorg; Danyko, Cassidy; Scavelli, Alexandra; Reverter, Ferran; Snyder, Michael; Gingeras, Thomas R.; Guigó Serra, Roderic

A limited set of transcriptional programs define major cell types

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dc.contributor.author Breschi, Alessandra, 1988-
dc.contributor.author Muñoz-Aguirre, Manuel
dc.contributor.author Wucher, Valentin
dc.contributor.author Davis, Carrie A.
dc.contributor.author Garrido Martín, Diego, 1992-
dc.contributor.author Djebali, Sarah
dc.contributor.author Gillis, Jesse
dc.contributor.author Pervouchine, Dmitri D.
dc.contributor.author Vlasova, Anna
dc.contributor.author Dobin, Alexander
dc.contributor.author Zaleski, Chris
dc.contributor.author Drenkow, Jorg
dc.contributor.author Danyko, Cassidy
dc.contributor.author Scavelli, Alexandra
dc.contributor.author Reverter, Ferran
dc.contributor.author Snyder, Michael
dc.contributor.author Gingeras, Thomas R.
dc.contributor.author Guigó Serra, Roderic
dc.date.accessioned 2020-09-23T06:02:58Z
dc.date.available 2020-09-23T06:02:58Z
dc.date.issued 2020
dc.description.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.
dc.description.sponsorship This project was supported by awards U54HG007004, U41HG007234, and R01MH101814 from the National Human Genome Research Institute of the National Institutes of Health, as well as from the Spanish Ministry of Economy and Competitiveness, Centro de Excelencia Severo Ochoa 2013–2017, SEV-2012-0208, Programa de Ayudas FPI del Ministerio de Economía y Competitividad BES-2012-055848 to A.B., and Ministerio de Educación, Cultura y Deporte, under the FPU programme (Formación de Profesorado Universitario) with predoctoral fellowship FPU15/03635 to M.M.A., as well as the support of the CERCA programme/Generalitat de Catalunya. D.G.M. is supported by a “la Caixa”-Severo Ochoa predoctoral fellowship LCF/BQ/SO15/52260001. We also acknowledge support from the European Research Council (ERC) under the European Union's Seventh Framework Programme (FP7/2007-2013)/ERC grant agreement 294653.
dc.format.mimetype application/pdf
dc.identifier.citation Breschi A, Muñoz-Aguirre M, Wucher V, Davis CA, Garrido-Martín D, Djebali S, Gillis J, Pervouchine DD, Vlasova A, Dobin A, Zaleski C, Drenkow J, Danyko C, Scavelli A, Reverter F, Snyder MP, Gingeras TR, Guigó R. A limited set of transcriptional programs define major cell types. Genome Res. 2020; 30(7):1047-59. DOI: 10.1101/gr.263186.120
dc.identifier.doi http://dx.doi.org/10.1101/gr.263186.120
dc.identifier.issn 1088-9051
dc.identifier.uri http://hdl.handle.net/10230/45329
dc.language.iso eng
dc.publisher Cold Spring Harbor Laboratory Press (CSHL Press)
dc.relation.ispartof Genome Res. 2020; 30(7):1047-59
dc.relation.projectID info:eu-repo/grantAgreement/EC/FP7/294653
dc.rights © 2020 Breschi et al.; Published by Cold Spring Harbor Laboratory Press. This article, published in Genome Research, is available under a Creative Commons License (Attribution-NonCommercial 4.0 International), as described at http://creativecommons.org/licenses/by-nc/4.0/.
dc.rights.accessRights info:eu-repo/semantics/openAccess
dc.rights.uri http://creativecommons.org/licenses/by-nc/4.0/
dc.title A limited set of transcriptional programs define major cell types
dc.type info:eu-repo/semantics/article
dc.type.version info:eu-repo/semantics/publishedVersion

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