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Nucleic Acids Research· 2012Q1

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

Juan Antonio Vizcaíno, Richard G. Côté, Attila Csordás, José A. Dianes et al.

Short summary

The PRIDE database, a major repository for mass spectrometry-based proteomics data, has been updated with new statistics on its content and descriptions of its submission and analysis tools.

AI-generated from the title and abstract; the full text is not read.

Key points

  • PRIDE database statistics updated for 2013, including data content by organism and species.
  • New submission tool PRIDE Converter 2 and analysis tool PRIDE Inspector are now available.
  • PRIDE is integrating with other MS proteomics resources through the ProteomeXchange consortium.
  • Ongoing quality control efforts and future plans for the database are outlined.

AI-generated from the title and abstract; the full text is not read.

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.

The authors' abstract, as published at the source. Nucleic Acids Research, 2012 · DOI ↗

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