title: Genome wide full-length transcript analysis using 5' and 3' paired-end-tag next generation sequencing (RNA-PET).
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.
authors: Genome Institute of Singapore, Singapore, Singapore.
authors: Xiaoan
authors: X
authors: Ruan
authors: Yijun
authors: Y
authors: Ruan
mesh_terms: D001483:Base Sequence / Q000235:genetics; D012313:RNA / Q000235:genetics; D012333:RNA, Messenger / Q000235:genetics*; D059467:Transcriptome
chemical_list: D012333:RNA, Messenger; D012313:RNA