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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...
Protein Networks02:26

Protein Networks

An organism can have thousands of different proteins, and these proteins must cooperate to ensure the health of an organism. Proteins bind to other proteins and form complexes to carry out their functions. Many proteins interact with multiple other proteins creating a complex network of protein interactions.
These interactions can be represented through maps depicting protein-protein interaction networks, represented as nodes and edges. Nodes are circles that are representative of a protein,...
Rapid Identification of Pathogens01:25

Rapid Identification of Pathogens

MALDI-TOF MS has transformed clinical microbiology by offering a rapid and reliable method for pathogen identification. The traditional approach to microbial identification typically involves time-consuming culture techniques and biochemical tests, which can delay the initiation of appropriate antimicrobial therapy. MALDI-TOF MS avoids these delays by using characteristic ribosomal protein mass patterns of microbial cells, enabling accurate species-level identification within minutes.Principle...

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Updated: Jun 21, 2026

TMT Sample Preparation for Proteomics Facility Submission and Subsequent Data Analysis
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TMT Sample Preparation for Proteomics Facility Submission and Subsequent Data Analysis

Published on: June 8, 2020

A guide to the Proteomics Identifications Database proteomics data repository.

Juan Antonio Vizcaíno1, Richard Côté, Florian Reisinger

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

Proteomics
|August 8, 2009
PubMed
Summary
This summary is machine-generated.

The Proteomics Identifications Database (PRIDE) is a key resource for mass spectrometry (MS) proteomics data. It offers robust data submission, retrieval, and visualization, enhancing scientific discovery.

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Published on: April 11, 2019

Area of Science:

  • Proteomics
  • Bioinformatics
  • Data Management

Background:

  • The Proteomics Identifications Database (PRIDE) serves as a central repository for mass spectrometry (MS) derived proteomics data.
  • Effective data management and accessibility are crucial for advancing proteomics research.

Purpose of the Study:

  • To outline the functionalities of PRIDE as both a data submission and retrieval resource.
  • To highlight PRIDE's capabilities for data visualization and cross-domain querying.
  • To present recent enhancements in the PRIDE data submission process.

Main Methods:

  • Description of PRIDE web and BioMart interfaces for data access.
  • Explanation of BioMart's cross-domain querying capabilities by integrating PRIDE with other biological databases (e.g., Reactome, Ensembl, UniProt).
  • Introduction of PRIDE Converter, a new graphical user interface for data submission.

Main Results:

  • PRIDE provides comprehensive functionalities for proteomics data management.
  • BioMart enables powerful integrated queries across multiple biological resources.
  • PRIDE Converter simplifies the data submission process.

Conclusions:

  • PRIDE is an essential resource for the proteomics community, facilitating data sharing and analysis.
  • Enhanced tools improve data accessibility and integration, supporting complex biological research.
  • PRIDE plays a significant role within the global ProteomExchange consortium.