Authors
Mark B Gerstein, Joel Rozowsky, Koon-Kiu Yan, Daifeng Wang, Chao Cheng, James B Brown, Carrie A Davis, LaDeana Hillier, Cristina Sisu, Jingyi Jessica Li, Baikang Pei, Arif O Harmanci, Michael O Duff, Sarah Djebali, Roger P Alexander, Burak H Alver, Raymond Auerbach, Kimberly Bell, Peter J Bickel, Max E Boeck, Nathan P Boley, Benjamin W Booth, Lucy Cherbas, Peter Cherbas, Chao Di, Alex Dobin, Jorg Drenkow, Brent Ewing, Gang Fang, Megan Fastuca, Elise A Feingold, Adam Frankish, Guanjun Gao, Peter J Good, Roderic Guigó, Ann Hammonds, Jen Harrow, Roger A Hoskins, Cédric Howald, Long Hu, Haiyan Huang, Tim JP Hubbard, Chau Huynh, Sonali Jha, Dionna Kasper, Masaomi Kato, Thomas C Kaufman, Robert R Kitchen, Erik Ladewig, Julien Lagarde, Eric Lai, Jing Leng, Zhi Lu, Michael MacCoss, Gemma May, Rebecca McWhirter, Gennifer Merrihew, David M Miller, Ali Mortazavi, Rabi Murad, Brian Oliver, Sara Olson, Peter J Park, Michael J Pazin, Norbert Perrimon, Dmitri Pervouchine, Valerie Reinke, Alexandre Reymond, Garrett Robinson, Anastasia Samsonova, Gary I Saunders, Felix Schlesinger, Anurag Sethi, Frank J Slack, William C Spencer, Marcus H Stoiber, Pnina Strasbourger, Andrea Tanzer, Owen A Thompson, Kenneth H Wan, Guilin Wang, Huaien Wang, Kathie L Watkins, Jiayu Wen, Kejia Wen, Chenghai Xue, Li Yang, Kevin Yip, Chris Zaleski, Yan Zhang, Henry Zheng, Steven E Brenner, Brenton R Graveley, Susan E Celniker, Thomas R Gingeras, Robert Waterston
Publication date
2014/8/28
Journal
Nature
Volume
512
Issue
7515
Pages
445-448
Publisher
Nature Publishing Group UK
Description
The transcriptome is the readout of the genome. Identifying common features in it across distant species can reveal fundamental principles. To this end, the ENCODE and modENCODE consortia have generated large amounts of matched RNA-sequencing data for human, worm and fly. Uniform processing and comprehensive annotation of these data allow comparison across metazoan phyla, extending beyond earlier within-phylum transcriptome comparisons and revealing ancient, conserved features,,,,,. Specifically, we discover co-expression modules shared across animals, many of which are enriched in developmental genes. Moreover, we use expression patterns to align the stages in worm and fly development and find a novel pairing between worm embryo and fly pupae, in addition to the embryo-to-embryo and larvae-to-larvae pairings. Furthermore, we find that the extent of non-canonical, non-coding …
Scholar articles
MB Gerstein, J Rozowsky, KK Yan, D Wang, C Cheng… - Nature, 2014