publication . Article . Other literature type . 2010

Linking promoters to functional transcripts in small samples with nanoCAGE and CAGEscan

Piero Carninci; Charles Plessy; Jun Kawai; Roberto Simone; Stefano Gustincich; Salimullah; Carrie A. Davis; Yoshihide Hayashizaki; Timo Lassmann; Valerio Orlando; ...
Open Access English
  • Published: 13 Jun 2010 Journal: Nature methods, volume 7, issue 7, pages 528-534 (issn: 1548-7091, eissn: 1548-7105, Copyright policy)
Abstract
Large-scale sequencing projects have revealed an unexpected complexity in the origins, structures and functions of mammalian transcripts. Many loci are known to produce overlapping coding and non-coding RNAs with capped 5′ ends that vary in size. Methods that identify the 5′ ends of transcripts will facilitate the discovery of novel promoters and 5′ ends derived from secondary capping events. Such methods often require high input amounts of RNA not obtainable from highly refined samples such as tissue microdissections and subcellular fractions. Therefore, we have developed nanoCAGE (Cap Analysis of Gene Expression), a method that captures the 5′ ends of transcri...
Subjects
free text keywords: Article, Biotechnology, Cell Biology, Biochemistry, Molecular Biology, Regulation of gene expression, Genetics, Biology, Computational biology, Non-coding RNA, RNA, Gene expression, Promoter, Transcriptome, Transcription (biology), Gene expression profiling
Funded by
NIH| Comprehensive Characterization and Classification of the Human Transcriptome
Project
  • Funder: National Institutes of Health (NIH)
  • Project Code: 5U54HG004557-02
  • Funding stream: NATIONAL HUMAN GENOME RESEARCH INSTITUTE
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