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Landscape of transcription in human cells

Sarah Djebali 1 Carrie A. Davis 2 Angelika Merkel 1 Alex Dobin 2 Timo Lassmann 3 Ali Mortazavi 4, 5 Andrea Tanzer 1 Julien Lagarde 1 Wei Lin 2 Felix Schlesinger 2 Chenghai Xue 2 Georgi K. Marinov 4 Jainab Khatun 6 Brian A. Williams 4 Chris Zaleski 2 Joel Rozowsky 7, 8 Maik Röder 1 Felix Kokocinski 8 Rehab F. Abdelhamid 3 Tyler Alioto 9, 1 Igor Antoshechkin 4 Michael T. Baer 2 Nadav S Bar 10 Philippe Batut 2 Kimberly Bell 2 Ian Bell 11 Sudipto Chakrabortty 2 Xian Chen 12 Jacqueline Chrast 13 Joao Curado 1 Thomas Derrien 1 Jorg Drenkow 3 Erica Dumais 11 Jacqueline Dumais 11 Radha Duttagupta 11 Emilie Falconnet 14 Meagan Fastuca 2 Kata Fejes-Toth 2 Pedro Ferreira 1 Sylvain Foissac 15 Melissa J Fullwood 16 Hui Gao 11 David Gonzalez 1 Assaf Gordon 2 Harsha Gunawardena 12 Cedric Howald 13 Sonali Jha 2 Rory Johnson 1 Philipp Kapranov 11, 17 Brandon King 4 Colin Kingswood 9, 1 Oscar J Luo 18 Eddie Park 5 Kimberly Persaud 2 Jonathan B. Preall 2 Paolo Ribeca 9, 1 Brian Risk 6 Daniel Robyr 14 Michael Sammeth 9, 1 Lorian Schaffer 9, 1 Lei-Hoon See 2 Atif Shahab 18 Jorgen Skancke 10, 1 Ana Maria Suzuki 3 Hazuki Takahashi 3 Hagen Tilgner 1 Diane Trout 4 Nathalie Walters 13 Huaien Wang 2 John Wrobel 6 Yanbao Yu 12 Xiaoan Ruan 18 Yoshihide Hayashizaki 3 Jennifer Harrow 8 Mark Gerstein 7, 8, 19 Tim Hubbard 8 Alexandre Reymond 13 Stylianos E Antonarakis 14 Gregory Hannon 2 Morgan C Giddings 6, 12 Yijun Ruan 18 Barbara Wold 4 Piero Carninci 3 Roderic Guigó 20, 1 Thomas R Gingeras 2, 11
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.
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Nature 2012 489 7414 ...
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Sarah Djebali, Carrie A. Davis, Angelika Merkel, Alex Dobin, Timo Lassmann, et al.. Landscape of transcription in human cells. Nature, Nature Publishing Group, 2012, 489 (7414), pp.101-108. ⟨10.1038/nature11233⟩. ⟨hal-01216755⟩

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