VirusSeq: software to identify viruses and their integration sites using next-generation sequencing of human cancer tissue

被引：119

作者：

Chen, Yunxin ^{[1
]}

Yao, Hui ^{[2
]}

Thompson, Erika J. ^{[3
]}

Tannir, Nizar M. ^{[1
]}

Weinstein, John N. ^{[2
]}

Su, Xiaoping ^{[2
]}

机构：

[1] Univ Texas MD Anderson Canc Ctr, Dept Genitourinary Med Oncol, Houston, TX 77030 USA

[2] Univ Texas MD Anderson Canc Ctr, Dept Bioinformat & Computat Biol, Houston, TX 77030 USA

[3] Univ Texas MD Anderson Canc Ctr, Dept Genet, Houston, TX 77030 USA

来源：

BIOINFORMATICS | 2013年 / 29卷 / 02期

基金：

美国国家卫生研究院;

关键词：

LIVER; HBV;

D O I：

10.1093/bioinformatics/bts665

中图分类号：

Q5 [生物化学];

学科分类号：

071010 ; 081704 ;

摘要：

We developed a new algorithmic method, VirusSeq, for detecting known viruses and their integration sites in the human genome using next-generation sequencing data. We evaluated VirusSeq on whole-transcriptome sequencing (RNA-Seq) data of 256 human cancer samples from The Cancer Genome Atlas. Using these data, we showed that VirusSeq accurately detects the known viruses and their integration sites with high sensitivity and specificity. VirusSeq can also perform this function using whole-genome sequencing data of human tissue.

引用

页码：266 / 267

页数：2