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- Title
The PRoteomics IDEntifications (PRIDE) database and associated tools: status in 2013.
- Authors
Vizcaíno, Juan Antonio; Côté, Richard G; Csordas, Attila; Dianes, José A; Fabregat, Antonio; Foster, Joseph M; Griss, Johannes; Alpi, Emanuele; Birim, Melih; Contell, Javier; O'Kelly, Gavin; Schoenegger, Andreas; Ovelleiro, David; Pérez-Riverol, Yasset; Reisinger, Florian; Ríos, Daniel; Wang, Rui; Hermjakob, Henning
- 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.
- Publication
Nucleic acids research, 2013, Vol 41, Issue Database issue, pD1063
- ISSN
1362-4962
- Publication type
Journal Article
- DOI
10.1093/nar/gks1262