The Transcriptional Landscape of the Mammalian Genome

Steven E. Brenner , Serge Batalov , Alistair R. R. Forrest , Steven E. Brenner , Serge Batalov , Alistair R. R. Forrest , Mihaela Zavolan , Melissa J. Davis , Laurens Wilming , Vassilis Aidinis , Jonathan Allen , Alberto Ambesi‐Impiombato , Rolf Apweiler , Rajith Aturaliya , Timothy L. Bailey , Mukul S. Bansal , Laura L. Baxter , Kirk W. Beisel , Tom Bersano , Hidemasa Bono , Alistair M. Chalk , Kuo Ping Chiu , Vijayata Choudhary , Alan Christoffels , D. R. Clutterbuck , Mark L. Crowe , Emiliano Dalla , Brian P. Dalrymple , Bernard de Bono , Giusy Della Gatta , Diego di Bernardo , Thomas A. Down , Pär G. Engström , Michela Fagiolini , Geoffrey J. Faulkner , Colin Fletcher , Tatsuya Fukushima , Masaaki Furuno , Sugiko Futaki , Manuela Gariboldi , Patrik Georgii‐Hemming , T Gingeras , Takashi Gojobori , Richard E. Green , Stefano Gustincich , Matthias Harbers , Yoshitaka Hayashi , Takao K. Hensch , Nobutaka Hirokawa , David E. Hill , Łukasz Huminiecki , Michele Iacono , Kazuho Ikeo , Atsushi Iwama , Takanori Ishikawa , Lars Martin Jakt , Alexander Kanapin , Masaru Katoh , Yuka Imamura Kawasawa , Janet Kelso , Hiroshi Kitamura , Hiroaki Kitano , George Kollias , Sivanand Krishnan , Adéle Kruger , Sarah Kummerfeld , Igor V. Kurochkin , Liana F. Lareau , Dejan Lazarević , Leonard Lipovich , Jinfeng Liu , Sabino Liuni , Sean McWilliam , M. Madan Babu , Martin Madera , Luigi Marchionni , Hideo Matsuda , Shu‐ichi Matsuzawa , Hiroaki Miki , Flavio Mignone , S. Miyake , Ken A. Morris , Salim Mottagui‐Tabar , Nicola Mulder , Norio Nakano , Hiromitsu Nakauchi , Patrick Ng , Roland Nilsson , Seiji Nishiguchi , Shigemichi Nishikawa , Piero Carninci , Takeya Kasukawa , Shintaro Katayama , Julian Gough , Martin C. Frith , Norihiro Maeda , Rieko Oyama , Timothy Ravasi , Boris Lenhard , Christine A. Wells , Rimantas Kodzius , Koya Shimokawa , Vladimir B. Bajić
2005 Science 3,525 citations

Abstract

This study describes comprehensive polling of transcription start and termination sites and analysis of previously unidentified full-length complementary DNAs derived from the mouse genome. We identify the 5′ and 3′ boundaries of 181,047 transcripts with extensive variation in transcripts arising from alternative promoter usage, splicing, and polyadenylation. There are 16,247 new mouse protein-coding transcripts, including 5154 encoding previously unidentified proteins. Genomic mapping of the transcriptome reveals transcriptional forests, with overlapping transcription on both strands, separated by deserts in which few transcripts are observed. The data provide a comprehensive platform for the comparative analysis of mammalian transcriptional regulation in differentiation and development.

Keywords

PolyadenylationBiologyGenomeTranscriptomeTranscription (linguistics)RNA splicingAlternative splicingGeneticsComputational biologyGeneTranscriptional regulationTranscription factorGene expressionMessenger RNARNA

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Publication Info

Year
2005
Type
article
Volume
309
Issue
5740
Pages
1559-1563
Citations
3525
Access
Closed

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Steven E. Brenner, Serge Batalov, Alistair R. R. Forrest et al. (2005). The Transcriptional Landscape of the Mammalian Genome. Science , 309 (5740) , 1559-1563. https://doi.org/10.1126/science.1112014

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DOI
10.1126/science.1112014
PMID
16141072

Data Quality

Data completeness: 77%