What is PRIDE?

What is PRIDE?

The PRIDE (PRoteomics IDEntifications) database at the European Bioinformatics Institute (EBI) is a centralised, standards-compliant public database containing MS-based proteomics data. It was originally developed to provide the proteomics community with a public repository for peptide and protein identifications, together with the evidence supporting these identifications [2, 3]

Figure 2 The PRIDE Archive web interface as of December 2017.

What does PRIDE store?

PRIDE aims to represent the submitter's original view of the data. PRIDE stores:

  • Quantification values: peptide and protein expression values (if available);
  • Metadata: technical and biological metadata;
  • Other files related to one submission: gel images, scripts, etc.

Why do we need PRIDE?

The PRIDE database is one of the main public repositories for proteomics data that have been generated by MS approaches. In addition, PRIDE is leading the ProteomeXchange consortium, accounting for >85% of all the submissions.

Various journals in the field strongly support, and some even mandate, deposition of MS-based proteomics data into a public proteomics repository such as PRIDE (or others from the ProteomeXchange consortium). This enables researchers to understand, and potentially reproduce, experiments described in a particular publication. It also allows you to reanalyse mass spectra data as protein sequence databases and search-engine toolkits improve.

In addition, PRIDE provides proteomics data to other data resources such as UniProt.