Title | Landscape of transcription in human cells. |
Publication Type | Journal Article |
Year of Publication | 2012 |
Authors | Djebali-Quelen, S, Davis, CA, Merkel, A, Dobin, A, Lassmann, T, Mortazavi, A, Tanzer, A, Lagarde, J, Lin, W, Schlesinger, F, Xue, C, Marinov, GK, Khatun, J, Williams, BA, Zaleski, C, Rozowsky, J, Röder, M, Kokocinski, F, Abdelhamid, RF, Alioto, T, Antoshechkin, I, Baer, MT, Bar, NS, Batut, P, Bell, K, Bell, I, Chakrabortty, S, Chen, X, Chrast, J, Curado, J, Derrien, T, Drenkow, J, Dumais, E, Dumais, J, Duttagupta, R, Falconnet, E, Fastuca, M, Fejes-Toth, K, Ferreira, P, Foissac, S, Fullwood, MJ, Gao, H, Gonzalez, D, Gordon, A, Gunawardena, H, Howald, C, Jha, S, Johnson, R, Kapranov, P, King, B, Kingswood, C, Luo, OJ, Park, E, Persaud, K, Preall, JB, Ribeca, P, Risk, B, Robyr, D, Sammeth, M, Schaffer, L, See, L-H, Shahab, A, Skancke, J, Suzuki, AMaria, Takahashi, H, Tilgner, H, Trout, D, Walters, N, Wang, H, Wrobel, J, Yu, Y, Ruan, X, Hayashizaki, Y, Harrow, J, Gerstein, M, Hubbard, T, Reymond, A, Antonarakis, SE, Hannon, G, Giddings, MC, Ruan, Y, Wold, B, Carninci, P, Guigó, R, Gingeras, TR |
Journal | Nature |
Volume | 489 |
Issue | 7414 |
Pagination | 101-8 |
Date Published | 2012 Sep 06 |
ISSN | 1476-4687 |
Keywords | Alleles, Cell Line, DNA, DNA, Intergenic, Encyclopedias as Topic, Enhancer Elements, Genetic, Exons, Gene Expression Profiling, Genes, Genome, Human, Genomics, Humans, Molecular Sequence Annotation, Polyadenylation, Protein Isoforms, Regulatory Sequences, Nucleic Acid, Repetitive Sequences, Nucleic Acid, RNA, RNA Editing, RNA Splicing, Sequence Analysis, RNA, Transcription, Genetic, Transcriptome |
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. |
DOI | 10.1038/nature11233 |
Alternate Journal | Nature |
PubMed ID | 22955620 |
PubMed Central ID | PMC3684276 |
Grant List | U54HG004558 / HG / NHGRI NIH HHS / United States U01 HG003147 / HG / NHGRI NIH HHS / United States RC2 HG005591 / HG / NHGRI NIH HHS / United States U54 HG007004 / HG / NHGRI NIH HHS / United States U54 HG004558 / HG / NHGRI NIH HHS / United States U54HG004557 / HG / NHGRI NIH HHS / United States U54 HG004557 / HG / NHGRI NIH HHS / United States 249968 / / European Research Council / International R01HG003700 / HG / NHGRI NIH HHS / United States P30 CA045508 / CA / NCI NIH HHS / United States U54 HG004576 / HG / NHGRI NIH HHS / United States 062023 / / Wellcome Trust / United Kingdom 1RC2HG005591 / HG / NHGRI NIH HHS / United States R37 GM062534 / GM / NIGMS NIH HHS / United States U54HG004576 / HG / NHGRI NIH HHS / United States R01 HG003700 / HG / NHGRI NIH HHS / United States U54HG004555 / HG / NHGRI NIH HHS / United States U54 HG004555 / HG / NHGRI NIH HHS / United States |