The transcriptional landscape of the mammalian genome.

P. Carninci, T. Kasukawa, S. Katayama, J. Gough, M. C. Frith, Norihiro Maeda, Rieko Oyama, T. Ravasi, B. Lenhard, C. Wells, Rimantas Kodzius, Kazuro Shimokawa, Vladimir B. Bajic, S. E. Brenner, Serge Batalov, A. R.R. Forrest, Mihaela Zavolan, M. J. Davis, Laurens G. Wilming, V. AidinisJ. E. Allen, A. Ambesi-Impiombato, R. Apweiler, Rajith N. Aturaliya, T. L. Bailey, M. Bansal, L. Baxter, Kirk W. Beisel, T. Bersano, H. Bono, Alistair M. Chalk, K. P. Chiu, V. Choudhary, A. Christoffels, D. R. Clutterbuck, M. L. Crowe, E. Dalla, B. P. Dalrymple, B. de Bono, G. della Gatta, D. di Bernardo, T. Down, P. Engstrom, M. Fagiolini, G. Faulkner, C. F. Fletcher, T. Fukushima, M. Furuno, S. Futaki, M. Gariboldi, P. Georgii-Hemming, T. R. Gingeras, Takashi Gojobori, R. E. Green, S. Gustincich, M. Harbers, Yutaka Hayashi, T. K. Hensch, N. Hirokawa, D. Hill, L. Huminiecki, M. Iacono, Kazuho Ikeo, A. Iwama, T. Ishikawa, M. Jakt, A. Kanapin, Masaru Katoh, Y. Kawasawa, J. Kelso, H. Kitamura, Hiroaki Kitano, G. Kollias, S. P.T. Krishnan, A. F. Kruger, S. K. Kummerfeld, I. V. Kurochkin, L. F. Lareau, D. Lazarevic, L. Lipovich, J. Liu, S. Liuni, S. McWilliam, M. Madan Babu, M. Madera, L. Marchionni, Hideo Matsuda, S. Matsuzawa, H. Miki, F. Mignone, S. Miyake, K. Morris, Salim Mottagui-Tabar, N. Mulder, N. Nakano, H. Nakauchi, P. Ng, R. Nilsson, S. Nishiguchi, S. Nishikawa, F. Nori, O. Ohara, Y. Okazaki, V. Orlando, K. C. Pang, W. J. Pavan, G. Pavesi, G. Pesole, Nikolai Petrovsky, S. Piazza, J. Reed, J. F. Reid, Brian Z. Ring, M. Ringwald, B. Rost, Y. Ruan, S. L. Salzberg, A. Sandelin, C. Schneider, Christian Schönbach, K. Sekiguchi, Colin A.M. Semple, S. Seno, L. Sessa, Y. Sheng, Y. Shibata, H. Shimada, K. Shimada, D. Silva, B. Sinclair, S. Sperling, E. Stupka, Koji Sugiura, R. Sultana, Yoichi Takenaka, K. Taki, K. Tammoja, S. L. Tan, S. Tang, M. S. Taylor, J. Tegner, S.A. A. Teichmann, H. R. Ueda, E. van Nimwegene, R. Verardo, C-L. L. Wei, K. Yagi, H. Yamanishi, E. Zabarovsky, S. Zhu, A. Zimmer, W. Hide, Carol J. Bult, Sean M. Grimmond, Rohan D. Teasdale, Edison T. Liu, V. Brusic, John Quackenbush, C. Wahlestedt, John S. Mattick, D. A. Hume, C. Kai, D. Sasaki, Y. Tomaru, S. Fukuda, M. Kanamori-Katayama, M. Suzuki, J. Aoki, T. Arakawa, J. Iida, K. Imamura, M. Itoh, Takahiro A. Kato, H. Kawaji, N. Kawagashira, T. Kawashima, M. Kojima, Shinji Kondo, Hideaki Konno, Kenji Nakano, N. Ninomiya, T. Nishio, M. Okada-Hatakeyama, C. Plessy, Kazuhiro Shibata, T. Shiraki, S. Suzuki, M. Tagami, Kazunori Waki, A. Watahiki, Y. Okamura-Oho, H. Suzuki, J. Kawai, Y. Hayashizaki

Research output: Contribution to journalArticle

2448 Citations (Scopus)

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.

Original languageEnglish
Pages (from-to)1559-1563
Number of pages5
JournalScience
Volume309
Issue number5740
Publication statusPublished - 2 Sep 2005
Externally publishedYes

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