UNIT 25.4 PRIDE: Data Submission and Analysis
Published Online: 1 APR 2010
Copyright © 2010 by John Wiley & Sons, Inc.
Lab Protocol Title
Current Protocols in Protein Science
How to Cite
Vizcaíno, J. A., Reisinger, F., Côté, R. and Martens, L. 2010. PRIDE: Data Submission and Analysis. Current Protocols in Protein Science. 60:25.4:25.4.1–25.4.11.
- Published Online: 1 APR 2010
- Published Print: APR 2010
The Proteomics Identifications database (PRIDE, http://www.ebi.ac.uk/pride) is one of the main repositories designed to store, disseminate, and analyze mass spectrometry–based proteomics datasets. In this unit, an overview of the PRIDE system is given, including its key satellite tools: the Ontology Lookup Service (OLS), the Protein Identifier Cross-Referencing Service (PICR), and Database on Demand (DoD). Also described in detail are procedures for submitting data to PRIDE, and accessing data stored in PRIDE using the BioMart interface. Finally, to demonstrate the potential of PRIDE as a source for data mining, an example protocol is provided to showcase the powerful cross-domain query capabilities available through a combination of BioMarts. Curr. Protoc. Protein Sci. 60:25.4.1-25.4.11. © 2010 by John Wiley & Sons, Inc.
- data mining;