Transcriptome analysis by strand-specific sequencing of complementary DNA

被引：676

作者：

Parkhomchuk, Dmitri ^{[1
]}

Borodina, Tatiana ^{[1
]}

Amstislavskiy, Vyacheslav ^{[1
]}

Banaru, Maria ^{[1
]}

Hallen, Linda ^{[1
]}

Krobitsch, Sylvia ^{[1
]}

Lehrach, Hans ^{[1
]}

Soldatov, Alexey ^{[1
]}

机构：

[1] Max Planck Inst Mol Genet, Dept Vertebrate Genom, D-14195 Berlin, Germany

来源：

NUCLEIC ACIDS RESEARCH | 2009年 / 37卷 / 18期

关键词：

RNA; MAPS;

D O I：

10.1093/nar/gkp596

中图分类号：

Q5 [生物化学]; Q7 [分子生物学];

学科分类号：

071010 ; 081704 ;

摘要：

High-throughput complementary DNA sequencing (RNA-Seq) is a powerful tool for whole-transcriptome analysis, supplying information about a transcript's expression level and structure. However, it is difficult to determine the polarity of transcripts, and therefore identify which strand is transcribed. Here, we present a simple cDNA sequencing protocol that preserves information about a transcript's direction. Using Saccharomyces cerevisiae and mouse brain transcriptomes as models, we demonstrate that knowing the transcript's orientation allows more accurate determination of the structure and expression of genes. It also helps to identify new genes and enables studying promoter-associated and antisense transcription. The transcriptional landscapes we obtained are available online.

引用

页数：7