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Related Experiment Video

Updated: Jun 13, 2026

TMT Sample Preparation for Proteomics Facility Submission and Subsequent Data Analysis
07:44

TMT Sample Preparation for Proteomics Facility Submission and Subsequent Data Analysis

Published on: June 8, 2020

PRIDE: Data submission and analysis.

Juan Antonio Vizcaíno1, Florian Reisinger1, Richard Côté1

  • 1European Molecular Biology Laboratory-European Bioinformatics Institute (EMBL-EBI), Hinxton, Cambridge, United Kingdom.

Current Protocols in Protein Science
|April 16, 2010
PubMed
Summary
This summary is machine-generated.

The Proteomics Identifications database (PRIDE) offers a centralized system for mass spectrometry proteomics data. It provides tools and interfaces for data submission, access, and analysis, facilitating scientific discovery.

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Area of Science:

  • Proteomics
  • Bioinformatics
  • Data Science

Background:

  • Mass spectrometry-based proteomics generates large datasets.
  • Effective data management and accessibility are crucial for scientific advancement.
  • Existing repositories require robust tools for data dissemination and analysis.

Purpose of the Study:

  • To provide a comprehensive overview of the Proteomics Identifications database (PRIDE).
  • To detail the functionalities of PRIDE's satellite tools: Ontology Lookup Service (OLS), Protein Identifier Cross-Referencing Service (PICR), and Database on Demand (DoD).
  • To demonstrate data submission and retrieval procedures using the BioMart interface for cross-domain queries.

Main Methods:

  • Overview of the PRIDE database architecture and its integrated services.
  • Detailed description of data submission workflows.
  • Explanation of data access methods via the BioMart interface.
  • Illustrative example of cross-domain data mining using BioMarts.

Main Results:

  • PRIDE serves as a primary repository for proteomics mass spectrometry data.
  • Key satellite tools (OLS, PICR, DoD) enhance data management and interoperability.
  • The BioMart interface enables efficient data retrieval and analysis.
  • Demonstrated capability for powerful cross-domain data mining within PRIDE.

Conclusions:

  • PRIDE is an essential resource for storing, disseminating, and analyzing proteomics data.
  • Integrated tools and interfaces facilitate data accessibility and usability.
  • PRIDE supports advanced data mining, enabling new scientific insights from proteomics datasets.