A guide to the Proteomics Identifications Database proteomics data repository

被引：187

作者：

Vizcaino, Juan Antonio ^{[1
]}

Cote, Richard ^{[1
]}

Reisinger, Florian ^{[1
]}

Foster, Joseph M. ^{[1
]}

Mueller, Michael ^{[1
]}

Rameseder, Jonathan ^{[1
,2
]}

Hermjakob, Henning ^{[1
]}

Martens, Lennart ^{[1
]}

机构：

[1] European Bioinformat Inst, EMBL Outstn, Cambridge, England

[2] MIT, Computat & Syst Biol Initiat, Cambridge, MA 02139 USA

来源：

PROTEOMICS | 2009年 / 9卷 / 18期

基金：

英国惠康基金;

关键词：

Bioinformatics; Data repository; Mass spectrometry; ONTOLOGY LOOKUP SERVICE; PROTEIN DATA-BANK; MS REPOSITORIES; PRIDE; RESOURCE; TANDEM; TOOLS; INFORMATION; SUBMISSION; SEQUENCES;

D O I：

10.1002/pmic.200900402

中图分类号：

Q5 [生物化学];

学科分类号：

071010 ; 081704 ;

摘要：

The Proteomics Identifications Database (PRIDE, www.ebi.ac.uk/pride) is one of the main repositories of MS derived proteomics data. Here, we point out the main functionalities of PRIDE both as a submission repository and as a source for proteomics data. We describe the main features for data retrieval and visualization available through the PRIDE web and BioMart interfaces. We also highlight the mechanism by which tailored queries in the BioMart can join PRIDE to other resources such as Reactome, Ensembl or UniProt to execute extremely powerful across-domain queries. We then present the latest improvements in the PRIDE submission process, using the new easy-to-use, platform-independent graphical user interface submission tool PRIDE Converter. Finally, we speak about future plans and the role of PRIDE in the ProteomExchange consortium.

引用

页码：4276 / 4283

页数：8

共 50 条

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