publication . Article . Part of book or chapter of book . Other literature type . 2013

RAMPAGE: Promoter Activity Profiling by Paired‐End Sequencing of 5′‐Complete cDNAs

RAMPAGE: Promoter Activity Profiling
Batut, Philippe; Gingeras, Thomas R.;
Open Access
  • Published: 11 Oct 2013 Journal: Current Protocols in Molecular Biology, volume 104 (issn: 1934-3639, eissn: 1934-3647, Copyright policy)
  • Publisher: Wiley
Abstract
This unit presents a protocol for RAMPAGE (RNA Annotation and Mapping of Promoters for the Analysis of Gene Expression), a method for the genome-wide identification of transcription start sites (TSS) and the quantification of promoter activity (Batut et al., 2012). RAMPAGE is based on the synthesis of 5′-complete complementary DNAs (cDNAs) from eukaryotic total RNA samples, and their sequencing on Illumina high-throughput platforms. Previous methods for high-throughput sequencing of 5′-complete cDNAs have failed to achieve high specificity for TSS identification, and often provide only scarce sequence information in the form of 20- to 30-base “tags” (Ni et al., ...
Subjects
free text keywords: General Medicine, Transcription (biology), Biology, Paired-end tag, Genetics, Whole genome sequencing, RNA, Genome, Illumina dye sequencing, DNA sequencing, Promoter, Article
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