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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...
Protein Folding Quality Check in the RER01:29

Protein Folding Quality Check in the RER

ER is the primary site for the maturation and folding of soluble and transmembrane secretory proteins. The calnexin cycle is a specific chaperone system that folds and assesses the confirmation of N-glycosylated proteins before they can exit the ER lumen. The primary players of this quality check pipeline are the lectins, ER-resident chaperones, and a glucosyl transferase enzyme. In case the calnexin system in the lumen fails to salvage a misfolded protein, it is transported to the cytoplasm...
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: May 23, 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: quality control in a proteomics data repository.

Attila Csordas1, David Ovelleiro, Rui Wang

  • 1EMBL Outstation, European Bioinformatics Institute (EBI), Wellcome Trust Genome Campus, Hinxton, Cambridge, CB10 1SD, UK. acsordas@ebi.ac.uk.

Database : the Journal of Biological Databases and Curation
|March 22, 2012
PubMed
Summary
This summary is machine-generated.

The PRoteomics IDEntifications (PRIDE) database ensures high-quality proteomics data through a robust curation pipeline. This system manages diverse data formats and large deposition sizes for public accessibility.

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Area of Science:

  • Proteomics
  • Bioinformatics
  • Data Archiving

Background:

  • The PRoteomics IDEntifications (PRIDE) database is a major public repository for proteomics data.
  • It archives mass spectrometry data supporting scientific publications, aiming for computational accessibility.
  • The database faces challenges with increasing data volume and diversity.

Purpose of the Study:

  • To describe the PRIDE curation pipeline.
  • To detail its application in quality control for complex proteomics data depositions.

Main Methods:

  • Implementation of a standardized curation pipeline for proteomics data.
  • Quality control measures applied to diverse data workflows and representations.

Main Results:

  • The PRIDE curation pipeline effectively manages large-scale data depositions.
  • Quality control ensures the integrity and accessibility of archived proteomics data.

Conclusions:

  • The PRIDE curation pipeline is essential for maintaining data quality in a rapidly growing public repository.
  • This systematic approach supports reliable access to proteomics data for the scientific community.