PASSEL: The PeptideAtlas SRM experiment library

被引：161

作者：

Farrah, Terry ^{[1
]}

Deutsch, Eric W. ^{[1
]}

Kreisberg, Richard ^{[1
]}

Sun, Zhi ^{[1
]}

Campbell, David S. ^{[1
]}

Mendoza, Luis ^{[1
]}

Kusebauch, Ulrike ^{[1
]}

Brusniak, Mi-Youn ^{[1
]}

Huettenhain, Ruth ^{[2
]}

Schiess, Ralph ^{[2
,3
]}

Selevsek, Nathalie ^{[2
,3
]}

Aebersold, Ruedi ^{[2
,3
,4
]}

Moritz, Robert L. ^{[1
]}

机构：

[1] Inst Syst Biol, Seattle, WA 98109 USA

[2] Swiss Fed Inst Technol, Dept Biol, Inst Mol Syst Biol, Zurich, Switzerland

[3] Ctr Syst Physiol & Metab Dis, Zurich, Switzerland

[4] Univ Zurich, Fac Sci, Zurich, Switzerland

来源：

PROTEOMICS | 2012年 / 12卷 / 08期

基金：

美国国家卫生研究院; 瑞士国家科学基金会; 欧洲研究理事会;

关键词：

Bioinformatics; Data Repository; MRM; Software; SRM; Targeted Proteomics; QUANTITATIVE PROTEOMICS; VALIDATION; SYSTEM;

D O I：

10.1002/pmic.201100515

中图分类号：

Q5 [生物化学];

学科分类号：

071010 ; 081704 ;

摘要：

Public repositories for proteomics data have accelerated proteomics research by enabling more efficient cross-analyses of datasets, supporting the creation of protein and peptide compendia of experimental results, supporting the development and testing of new software tools, and facilitating the manuscript review process. The repositories available to date have been designed to accommodate either shotgun experiments or generic proteomic data files. Here, we describe a new kind of proteomic data repository for the collection and representation of data from selected reaction monitoring (SRM) measurements. The PeptideAtlas SRM Experiment Library (PASSEL) allows researchers to easily submit proteomic data sets generated by SRM. The raw data are automatically processed in a uniform manner and the results are stored in a database, where they may be downloaded or browsed via a web interface that includes a chromatogram viewer. PASSELenables cross-analysis of SRMdata, supports optimization of SRMdata collection, and facilitates the review process of SRMdata. Further, PASSELwill help in the assessment of proteotypic peptide performance in a wide array of samples containing the same peptide, as well as across multiple experimental protocols.

引用

页码：1170 / 1175

页数：6

共 25 条

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