Pyicos: a versatile toolkit for the analysis of high-throughput sequencing data

被引：73

作者：

Althammer, Sonja ^{[1
]}

Gonzalez-Vallinas, Juan ^{[1
]}

Ballare, Cecilia ^{[2
]}

Beato, Miguel ^{[1
,2
]}

Eyras, Eduardo ^{[1
,3
]}

机构：

[1] Univ Pompeu Fabra, E-08003 Barcelona, Spain

[2] Ctr Genom Regulat CRG, E-08003 Barcelona, Spain

[3] Catalan Inst Res & Adv Studies ICREA, E-08010 Barcelona, Spain

来源：

BIOINFORMATICS | 2011年 / 27卷 / 24期

关键词：

DIFFERENTIAL EXPRESSION ANALYSIS; CHIP-SEQ; RNA-SEQ; REVEALS; IDENTIFICATION; NORMALIZATION; TRANSCRIPTOME; REPRESSOR; PROFILES; PACKAGE;

D O I：

10.1093/bioinformatics/btr570

中图分类号：

Q5 [生物化学];

学科分类号：

071010 ; 081704 ;

摘要：

Results: We describe Pyicos, a powerful toolkit for the analysis of mapped reads from diverse HTS experiments: ChIP-Seq, either punctuated or broad signals, CLIP-Seq and RNA-Seq. We prove the effectiveness of Pyicos to select for significant signals and show that its accuracy is comparable and sometimes superior to that of methods specifically designed for each particular type of experiment. Pyicos facilitates the analysis of a variety of HTS datatypes through its flexibility and memory efficiency, providing a useful framework for data integration into models of regulatory genomics.

引用

页码：3333 / 3340

页数：8

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