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Landscape of transcription in human cells

Djebali, Sarah and Mortazavi, Ali and Marinov, Georgi K. and Williams, Brian A. and Antoshechkin, Igor and Fejes Toth, Kata and King, Brandon and Schaffer, Lorian and Trout, Diane and Wold, Barbara (2012) Landscape of transcription in human cells. Nature, 489 (7414). pp. 101-108. ISSN 0028-0836. PMCID PMC3684276. https://resolver.caltech.edu/CaltechAUTHORS:20121025-155437375

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Abstract

Eukaryotic cells make many types of primary and processed RNAs that are found either in specific subcellular compartments or throughout the cells. A complete catalogue of these RNAs is not yet available and their characteristic subcellular localizations are also poorly understood. Because RNA represents the direct output of the genetic information encoded by genomes and a significant proportion of a cell’s regulatory capabilities are focused on its synthesis, processing, transport, modification and translation, the generation of such a catalogue is crucial for understanding genome function. Here we report evidence that three-quarters of the human genome is capable of being transcribed, as well as observations about the range and levels of expression, localization, processing fates, regulatory regions and modifications of almost all currently annotated and thousands of previously unannotated RNAs. These observations, taken together, prompt a redefinition of the concept of a gene.


Item Type:Article
Related URLs:
URLURL TypeDescription
http://dx.doi.org/10.1038/nature11233DOIArticle
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3684276/PubMed CentralArticle
http://rdcu.be/cseCPublisherFree ReadCube access
ORCID:
AuthorORCID
Mortazavi, Ali0000-0002-4259-6362
Marinov, Georgi K.0000-0003-1822-7273
Antoshechkin, Igor0000-0002-9934-3040
Fejes Toth, Kata0000-0001-6558-2636
Wold, Barbara0000-0003-3235-8130
Additional Information:© 2012 Nature Publishing Group, a division of Macmillan Publishers Limited. This article is distributed under the terms of the Creative Commons Attribution-Non-Commercial-Share Alike licence (http://creativecommons.org/licenses/by-nc-sa/3.0/). Received 10 December 2011; accepted 15 May 2012. This work was supported by the National Human Genome Research Institute (NHGRI) production grants U54HG004557, U54HG004555, U54HG004576 and U54HG004558, and by the NHGRI pilot grant R01HG003700. It was also supported by the NHGRI ARRA stimulus grant 1RC2HG005591, the National Science Foundation (SNF) grant 127375, the European Research Council (ERC) grant 249968, a research grant for the RIKEN Omics Science Center from the Japanese Ministry of Education, Culture, Sports, Science and Technology, and grants BIO2011-26205, CSD2007-00050 and INB GNV-1 from the Spanish Ministry of Science. We would also like to thank C. Gunter and W. Spitzer for editorial assistance with the manuscript. T.R.G., R.G., P.C., B.W., Y.R., M.C.G., G.H., S.E.A., A.R., T.H., M.G. and Y.H. led the project and oversaw the analysis. C.A.D., X.R., B.A.W. and P.C. oversaw or significantly contributed to data generation. S.D., A.Me., A.D., T.L., A.Mo., A.T., J.L., W.L., F.S., C.X., G.K.M., J.K., C.Z., J.R.,M.R., F.K. and J.H. made major contributions towards data processing and analysis. R.F.A., T.A., I.A., M.T.B., N.S.B., P.B., K.B., I.B.,S.C., X.C., J.Ch., J.Cu., T.D., J.Dr., E.D., J.Du., R.D., E.F.,M.F., K.F-T., P.F., S.F., M.J.F., H.Ga., D.G.,A.G., H.Gu., C.H.,S.J., R.J., P.K., B.K., C.K., O.J.L., E.P., K.P., J.B.P., P.R., B.R., D.R., M.S., L.S., L.-H.S., A.S., J.S., A.M.S., H.Ta., H.Ti., D.T., N.W., H.W., J.W. and Y.Y. were responsible for data production and analysis. T.R.G. and R.G. wrote the manuscript with input from all authors.
Funders:
Funding AgencyGrant Number
NIHU54HG004557
NIHU54HG004555
NIHU54HG004576
NIHU54HG004558
NIHR01 HG003700
NIH1RC2HG005591
NSF127375
European Research Council (ERC)249968
Ministry of Education, Culture, Sports, Science and Technology (MEXT)UNSPECIFIED
Ministerio de Ciencia e Innovación (MCINN)BIO2011-26205
Ministerio de Ciencia e Innovación (MCINN)CSD2007-00050
Ministerio de Ciencia e Innovación (MCINN)INB GNV-1
Subject Keywords:Genetics; Genomics; Molecular biology
Issue or Number:7414
PubMed Central ID:PMC3684276
Record Number:CaltechAUTHORS:20121025-155437375
Persistent URL:https://resolver.caltech.edu/CaltechAUTHORS:20121025-155437375
Official Citation:Djebali, S., C. A. Davis, et al. (2012). "Landscape of transcription in human cells." Nature 489(7414): 101-108.
Usage Policy:No commercial reproduction, distribution, display or performance rights in this work are provided.
ID Code:35106
Collection:CaltechAUTHORS
Deposited By: Jason Perez
Deposited On:25 Oct 2012 23:51
Last Modified:15 Apr 2020 16:53

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