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      The Proteomics Identifications (PRIDE) database and associated tools: status in 2013

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          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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          Author and article information

          Journal
          Nucleic Acids Res
          Nucleic Acids Res
          nar
          nar
          Nucleic Acids Research
          Oxford University Press
          0305-1048
          1362-4962
          January 2013
          29 November 2012
          29 November 2012
          : 41
          : Database issue , Database issue
          : D1063-D1069
          Affiliations
          1EMBL Outstation, European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, UK, 2Department of Proteomics, Center for Genetic Engineering and Biotechnology, Havana, Cuba and 3CeMM Research Center for Molecular Medicine of the Austrian Academy of Sciences, Lazarettgasse 14, AKH BT 25.3, 1090 Vienna, Austria
          Author notes
          *To whom correspondence should be addressed. Tel: +44 1223 492686; Fax: +44 1223 494468; Email: pst@ 123456ebi.ac.uk
          Article
          gks1262
          10.1093/nar/gks1262
          3531176
          23203882
          © The Author(s) 2012. Published by Oxford University Press.

          This is an Open Access article distributed under the terms of the Creative Commons Attribution License ( http://creativecommons.org/licenses/by-nc/3.0/), which permits non-commercial reuse, distribution, and reproduction in any medium, provided the original work is properly cited. For commercial re-use, please contact journals.permissions@oup.com.

          Page count
          Pages: 7
          Categories
          Articles

          Genetics

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