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Proteomics

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-Protein Interfaces

Protein-Protein Interfaces

Many proteins form complexes to carry out their functions, making protein-protein interactions (PPIs) essential for an organism's survival. Most PPIs are stabilized by numerous weak noncovalent chemical forces. The physical shape of the interfaces determines the way two proteins interact. Many globular proteins have closely-matching shapes on their surfaces, which form a large number of weak bonds. Additionally, many PPIs occur between two helices or between a surface cleft and a polypeptide...

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Related Experiment Video

Updated: Jun 6, 2026

TMT Sample Preparation for Proteomics Facility Submission and Subsequent Data Analysis

TMT Sample Preparation for Proteomics Facility Submission and Subsequent Data Analysis

Published on: June 8, 2020

Submitting proteomics data to PRIDE using PRIDE Converter.

Harald Barsnes¹, Juan Antonio Vizcaíno, Florian Reisinger

¹Department of Informatics, University of Bergen, Bergen, Norway.

Methods in Molecular Biology (Clifton, N.J.)

|November 18, 2010

Summary

This summary is machine-generated.

Making proteomics data publicly available is crucial for scientific integrity and reuse. PRIDE Converter simplifies submitting mass spectrometry (MS) data to the PRoteomics IDEntifications database (PRIDE), aiding researchers.

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Published on: April 11, 2019

Area of Science:

Proteomics
Bioinformatics
Data Management

Background:

Increasing volume of proteomics data necessitates public accessibility for auditing, reanalysis, and reuse.
Journals increasingly mandate deposition of mass spectrometry (MS) data in public repositories for submitted manuscripts.

Purpose of the Study:

To demonstrate the utility of PRIDE Converter, a graphical user interface tool.
To simplify the process of submitting proteomics data to the PRoteomics IDEntifications database (PRIDE).

Main Methods:

Utilized PRIDE Converter, a new graphical user interface tool.
Focused on the PRoteomics IDEntifications database (PRIDE) as a primary proteomics data repository.

Main Results:

PRIDE Converter significantly simplifies the submission of proteomics data to PRIDE.
The tool enhances the accessibility and usability of proteomics datasets.

Conclusions:

The adoption of tools like PRIDE Converter is essential for efficient data sharing in proteomics.
Streamlined data submission facilitates broader scientific collaboration and data reuse.