[ngs-2012] Genome wide full-length transcript analysis using 5' and 3' paired-end-tag next generation sequencing (RNA-PET).

[Travis Clark]

Anyone tried?

Methods Mol Biol. <http://www.ncbi.nlm.nih.gov/pubmed/22113299#>
 2012;809:535-62.
 Genome wide full-length transcript analysis using 5' and 3' paired-end-tag
next generation sequencing (RNA-PET).
Ruan X<http://www.ncbi.nlm.nih.gov/pubmed?term=Ruan%20X%5BAuthor%5D&cauthor=true&cauthor_uid=22113299>
, Ruan Y<http://www.ncbi.nlm.nih.gov/pubmed?term=Ruan%20Y%5BAuthor%5D&cauthor=true&cauthor_uid=22113299>
.

Genome Institute of Singapore, Singapore, Singapore.
 Abstract

RNA-PET is a paired end tag (PET) sequencing method for full-length mRNA
transcripts analysis using the next generation sequencer platforms such as
Illumina GA and SOLiD. Unlike RNA-Seq method that sequences randomly
sheared shotgun RNA short fragments, RNA-PET captures and sequences the 5'
and 3'end tags of full-length cDNA fragments of all expressed genes in a
biological sample. When mapped to reference genome, RNA-PET sequences can
demarcate the boundaries of transcription units genome-wide, in addition to
its ability to quantify the transcription level of each expression genes.
Furthermore, the unique feature of RNA-PET is to identify fusion
transcripts. Therefore, RNA-PET has been regarded as the best PET for
genome annotation (1). Here in this chapter, we describe the details of the
RNA-PET protocol and discuss the critical issues.
  PMID:  22113299  [PubMed - indexed for MEDLINE]
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