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A guide to the Proteomics Identifications Database proteomics data repository
Author(s) -
Vizcaíno Juan Antonio,
Côté Richard,
Reisinger Florian,
M. Foster Joseph,
Mueller Michael,
Rameseder Jonathan,
Hermjakob Henning,
Martens Lennart
Publication year - 2009
Publication title -
proteomics
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 1.26
H-Index - 167
eISSN - 1615-9861
pISSN - 1615-9853
DOI - 10.1002/pmic.200900402
Subject(s) - pride , computer science , proteomics , uniprot , ensembl , world wide web , interface (matter) , ontology , database , data science , genomics , biology , biochemistry , philosophy , bubble , epistemology , genome , maximum bubble pressure method , parallel computing , political science , law , gene
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.