About PRIDE

What is PRIDE?

The PRIDE PRoteomics IDEntifications (PRIDE) database is a centralized, standards compliant, public data repository for proteomics data, including protein and peptide identifications, post-translational modifications and supporting spectral evidence. PRIDE is a core member in the ProteomeXchange (PX) consortium, which provides a single point for submitting mass spectrometry based proteomics data to public-domain repositories. Datasets are submitted to PRIDE via ProteomeXchange and are handled by expert biocurators.

 

Publications / how to cite

  • Citing PRIDE generally: Vizcaino JA, Cote RG, Csordas A, Dianes JA, Fabregat A, Foster JM, Griss J, Alpi E, Birim M, Contell J, O'Kelly G, Schoenegger A, Ovelleiro D, Perez-Riverol Y, Reisinger F, Rios D, Wang R, Hermjakob H. The Proteomics Identifications (PRIDE) database and associated tools: status in 2013. Nucleic Acids Res. 2013 Jan 1;41(D1):D1063-9. doi: 10.1093/nar/gks1262. Epub 2012 Nov 29. PubMed PMID:23203882.
  • Citing a PX identifier for a dataset:

Complete: The mass spectrometry proteomics data have been deposited to the ProteomeXchange Consortium (http://proteomecentral.proteomexchange.org) via the PRIDE partner repository [1] with the dataset identifier PXD000000 and DOI 10.6019/PXD000000.
Partial: The mass spectrometry proteomics data have been deposited to the ProteomeXchange Consortium (http://proteomecentral.proteomexchange.org) via the PRIDE partner repository [1] with the dataset identifier PXD000000.

[1] Vizcaino JA, et al. The Proteomics Identifications (PRIDE) database and associated tools: status in 2013. Nucleic Acids Res. 2013 Jan 1;41(D1):D1063-9.

Please also check out the publications page from the PRIDE team for a more comprehensive list of peer-reviewed papers and posters/oral presentations at international conferences.

 

The team behind PRIDE

PRIDE is part of the EMBL-EBI Proteomics Services, led by Henning Hermjakob. The PRIDE team currently consists of software developers, biocurators, trainees/visitors and one project coordinator.

 

Acknowledgements

The PRIDE team would like to thank all data submitters for their contributions. The PRIDE team is funded at present by the Wellcome Trust [grant number WT085949MA], the EU FP7 grants ‘ProteomeXchange’ [grant number 260558], and ‘PRIME-XS’ [grant number 262067] and EMBL core funding. 

In the recent past PRIDE has also been funded by the EU grant ‘LipidomicNet’ [grant number 202272], and the BBSRC grant ‘PRIDE Converter’ [reference BB/I024204/1].

The PRIDE team would like to thank the following companies for their support through the offering of free software licenses:

IntelliJ Idea Developed with IntelliJ IDEA.
YourKit Java Profiler Profiled with YourKit Java Profiler.
Matrix Science Consulted with Matrix Science.