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. 2013 Jan;41(Database issue):D1063-9.
doi: 10.1093/nar/gks1262. Epub 2012 Nov 29.

The PRoteomics IDEntifications (PRIDE) database and associated tools: status in 2013

Juan Antonio Vizcaíno  1 , Richard G Côté, Attila Csordas, José A Dianes, Antonio Fabregat, Joseph M Foster, Johannes Griss, Emanuele Alpi, Melih Birim, Javier Contell, Gavin O'Kelly, Andreas Schoenegger, David Ovelleiro, Yasset Pérez-Riverol, Florian Reisinger, Daniel Ríos, Rui Wang, Henning Hermjakob
Affiliations

The PRoteomics IDEntifications (PRIDE) database and associated tools: status in 2013

Juan Antonio Vizcaíno et al. Nucleic Acids Res. 2013 Jan.

Abstract

The PRoteomics IDEntifications (PRIDE, http://www.ebi.ac.uk/pride) database at the European Bioinformatics Institute is one of the most prominent data repositories of mass spectrometry (MS)-based proteomics data. Here, we summarize recent developments in the PRIDE database and related tools. First, we provide up-to-date statistics in data content, splitting the figures by groups of organisms and species, including peptide and protein identifications, and post-translational modifications. We then describe the tools that are part of the PRIDE submission pipeline, especially the recently developed PRIDE Converter 2 (new submission tool) and PRIDE Inspector (visualization and analysis tool). We also give an update about the integration of PRIDE with other MS proteomics resources in the context of the ProteomeXchange consortium. Finally, we briefly review the quality control efforts that are ongoing at present and outline our future plans.

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Figures

Figure 1.
Figure 1.
Summary of the ways the user can access and retrieve data from PRIDE. The web links to the existing PRIDE tools are also highlighted, including the PRIDE Converter 2 (needed for data submission).
See this image and copyright information in PMC

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