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Related Concept Videos

Proteomics01:33

Proteomics

A proteome is the entire set of proteins that a cell type produces. We can study proteomes using the knowledge of genomes because genes code for mRNAs, and the mRNAs encode proteins. Although mRNA analysis is a step in the right direction, not all mRNAs are translated into proteins.
Proteomics is the study of proteomes' function. It involves the large-scale systematic study of the proteome to denote the protein complement expressed by a genome. Scientist Mark Wilkins coined the term proteomics...
Peptide Identification Using Tandem Mass Spectrometry01:33

Peptide Identification Using Tandem Mass Spectrometry

Tandem mass spectrometry, also known as MS/MS or MS2, is an analytical technique that employs two mass analyzers. Essentially it is a series of mass spectrometers that helps isolate a particular biomolecule and then helps study its chemical properties.
This technique helps gather information regarding the protein from which the peptide was obtained and to study the peptides’ amino acid sequence. Identifying peptides from a complex mixture is an important component of the growing field of...

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Related Experiment Video

Updated: Jul 4, 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

The PRIDE proteomics identifications database: data submission, query, and dataset comparison.

Philip Jones1, Richard Côté

  • 1EMBL-European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, UK.

Methods in Molecular Biology (Clifton, N.J.)
|July 2, 2008
PubMed
Summary
This summary is machine-generated.

The PRIDE database offers a centralized platform for proteomics data sharing and analysis. It addresses challenges in data variability by providing standardized formats and tools for global proteomics research.

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Area of Science:

  • Proteomics
  • Bioinformatics
  • Data Science

Background:

  • The rapid expansion of proteomics data generation presents challenges due to diverse experimental techniques and data formats.
  • Lack of standardized infrastructure hinders effective data sharing and comparison within the global proteomics community.

Purpose of the Study:

  • To introduce the PRoteomics IDEntifications (PRIDE) database as a solution for managing and sharing proteomics data.
  • To describe the resources and practical considerations for utilizing PRIDE in proteomics research.

Main Methods:

  • Development of a generic, standards-based data format for proteomics.
  • Implementation of a protein accession mapping service (PICR) for cross-referencing databases.
  • Provision of tools for data query, comparison, and analysis.

Main Results:

  • PRIDE offers a comprehensive infrastructure for proteomics data management.
  • Resources include the PRIDE database, Ontology Lookup Service (OLS), PICR, PRIDE submission spreadsheet, and PRIDE BioMart.
  • Facilitates public and private data sharing among proteomics laboratories worldwide.

Conclusions:

  • PRIDE provides a vital infrastructure to standardize and facilitate the sharing of global proteomics data.
  • The integrated resources enhance data accessibility, comparability, and analysis for the proteomics community.