The OMSSAPercolator: An automated tool to validate OMSSA results

被引：14

作者：

Wen, Bo ^{[1
]}

Li, Guilin ^{[1
]}

Wright, James C. ^{[2
]}

Du, Chaoqin ^{[1
]}

Feng, Qiang ^{[1
,3
]}

Xu, Xun ^{[1
]}

Choudhary, Jyoti S. ^{[2
]}

Wang, Jun ^{[1
,3
]}

机构：

[1] BGI Shenzhen, Shenzhen 518083, Peoples R China

[2] Wellcome Trust Sanger Inst, Cambridge, England

[3] Univ Copenhagen, Dept Biol, Copenhagen, Denmark

来源：

PROTEOMICS | 2014年 / 14卷 / 09期

基金：

国家高技术研究发展计划(863计划);

关键词：

Bioinformatics; MS; Peptide identification; Shotgun proteomics; SENSITIVE PEPTIDE IDENTIFICATION; MASS-SPECTROMETRY; STATISTICAL-MODEL; MASCOT PERCOLATOR; SEARCH; ACCURATE; DATABASE; MS/MS;

D O I：

10.1002/pmic.201300393

中图分类号：

Q5 [生物化学];

学科分类号：

071010 ; 081704 ;

摘要：

Protein identification by MS/MS is an important technique in proteome studies. The Open Mass Spectrometry Search Algorithm (OMSSA) is an open-source search engine that can be used to identify MS/MS spectra acquired in these experiments. Here, we present a software tool, termed OMSSAPercolator, which interfaces OMSSA with Percolator, a post-search machine learning method for rescoring database search results. We demonstrate that it outperforms the standard OMSSA scoring scheme, and provides reliable significant measurements. OMSSAPercolator is programmed using JAVA and can be readily used as a standalone tool or integrated into existing data analysis pipelines. OMSSAPercolator is freely available and can be downloaded at .

引用

页码：1011 / 1014

页数：4

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