The Transcriptional Landscape of the Mammalian Genome

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

Affiliated Institutions

• University of California, Berkeley US
• University of Milan IT
• The University of Queensland AU
• J. Craig Venter Institute US
• Scripps Research Institute US
• Agency for Science, Technology and Research SG
• Yokohama City University JP
• National University of Singapore SG
• Medical Research Council GB
• Creighton University US
• Aichi Medical University JP
• Columbia University US
• University of Basel CH
• Griffith University AU
• The University of Tokyo JP
• National Cancer Research Institute GB
• The University of Osaka JP
• Commonwealth Scientific and Industrial Research Organisation AU
• Karolinska Institutet SE
• University of Edinburgh GB
• University of the Western Cape ZA
• Novartis Foundation CH
• National Institutes of Health US
• Health Sciences and Nutrition AU

Related Publications