1,315
Views
75
CrossRef citations to date
0
Altmetric
Editorial

The Proteomics Identifications Database (PRIDE) and the ProteomExchange Consortium: making proteomics data accessible

&
Pages 1-3 | Published online: 09 Jan 2014

References

  • Washburn MP, Wolters D, Yates JR III. Large-scale analysis of the yeast proteome by multidimensional protein identification technology. Nature Biotechnol. 19(3), 242–247 (2001).
  • Hamacher M, Meyer HE. HUPO Brain Proteome Project: aims and needs in proteomics. Expert Rev. Proteomics 2(1), 1–3 (2005).
  • Omenn GS, States DJ, Adamski M et al. Overview of the HUPO Plasma Proteome Project: results from the pilot phase with 35 collaborating laboratories and multiple analytical groups, generating a core data set of 3020 proteins and a publicly-available database. Proteomics 5(13), 3226–3245 (2005).
  • Hermjakob H, Montecchi-Palazzi L, Bader G et al. The HUPO PSI’s molecular interaction format – a community standard for the representation of protein interaction data. Nature Biotechnol. 22(2), 177–183 (2004).
  • Carr S, Aebersold R, Baldwin M et al. The need for guidelines in publication of peptide and protein identification data: Working Group on Publication Guidelines for Peptide and Protein Identification Data. Mol. Cell. Proteomics 3(6), 531–533 (2004).
  • Taylor CF, Paton NW, Garwood KL et al. A systematic approach to modeling, capturing, and disseminating proteomics experimental data. Nature Biotechnol. 21(3), 247–254 (2003).
  • Pedrioli PG, Eng JK, Hubley R et al. A common open representation of mass spectrometry data and its application to proteomics research. Nature Biotechnol. 22(11), 1459–1466 (2004).
  • Orchard S, Hermjakob H, Taylor CF et al. Second proteomics standards initiative spring workshop. Expert Rev. Proteomics 2(3), 287–289 (2005).
  • Jones P, Cote RG, Martens L et al. PRIDE: a public repository of protein and peptide identifications for the proteomics community. Nucleic Acids Res. 34(Database issue), D659–D663 (2006).
  • Adamski M, Blackwell T, Menon R et al. Data management and preliminary data analysis in the pilot phase of the HUPO Plasma Proteome Project. Proteomics 5(13), 3246–3261 (2005).
  • Craig R, Cortens JP, Beavis RC. Open source system for analyzing, validating, and storing protein identification data. J. Proteome Res. 3(6), 1234–1242 (2004).
  • Prince JT, Carlson MW, Wang R, Lu P, Marcotte EM. The need for a public proteomics repository. Nature Biotechnol. 22(4), 471–472 (2004).
  • Garwood K, McLaughlin T, Garwood C et al. PEDRo: a database for storing, searching and disseminating experimental proteomics data. BMC Genomics 5(1), 68 (2004).
  • Desiere F, Deutsch EW, King NL et al. The PeptideAtlas project. Nucleic Acids Res. 34(Database issue), D655–D658 (2006).

Websites

  • PSI-MS: Mass Spectrometry Standards Working Group http://psidev.sourceforge.net/ms/index.html
  • PRIDE: PRoteomics IDEntifications database www.ebi.ac.uk/pride
  • International Nucleotide Sequence Database Collaboration www.insdc.org
  • The International Molecular Exchange Consortium (IMEx) http://imex.sf.net

Reprints and Corporate Permissions

Please note: Selecting permissions does not provide access to the full text of the article, please see our help page How do I view content?

To request a reprint or corporate permissions for this article, please click on the relevant link below:

Academic Permissions

Please note: Selecting permissions does not provide access to the full text of the article, please see our help page How do I view content?

Obtain permissions instantly via Rightslink by clicking on the button below:

If you are unable to obtain permissions via Rightslink, please complete and submit this Permissions form. For more information, please visit our Permissions help page.