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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 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,...

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Related Experiment Video

Updated: May 23, 2026

Production of Tissue Microarrays, Immunohistochemistry Staining and Digitalization Within the Human Protein Atlas
09:08

Production of Tissue Microarrays, Immunohistochemistry Staining and Digitalization Within the Human Protein Atlas

Published on: May 31, 2012

Towards a human proteomics atlas.

Giulia Gonnelli1, Niels Hulstaert, Sven Degroeve

  • 1Department of Medical Protein Research, VIB, Ghent, Belgium.

Analytical and Bioanalytical Chemistry
|March 27, 2012
PubMed
Summary
This summary is machine-generated.

This study explores creating a human tissue-specific protein expression atlas using PRIDE proteomics data. It investigates challenges in reusing public mass spectrometry data for comprehensive biological insights.

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Area of Science:

  • Proteomics
  • Bioinformatics
  • Life Sciences

Background:

  • Proteomics research is growing in importance within life sciences.
  • Public data sharing in proteomics is increasing, exemplified by the PRIDE database.
  • Reuse of public proteomics data is expanding due to data growth.

Purpose of the Study:

  • To investigate the creation of a robust, tissue-specific human protein expression atlas.
  • To explore the reuse of publicly available proteomics data from the PRIDE database.
  • To address challenges in constructing atlases from tandem mass spectrometry (MS) based label-free quantification data.

Main Methods:

  • Utilizing human proteomics data stored in the PRIDE database.
  • Applying label-free quantification (LFQ) techniques from tandem MS experiments.
  • Developing methods for integrative data reuse to build expression atlases.

Main Results:

  • Demonstrated the feasibility of constructing a human protein expression atlas from public data.
  • Identified key issues and considerations for large-scale data reuse in proteomics.
  • Provided a framework for building tissue-specific protein expression profiles.

Conclusions:

  • Public proteomics data repositories like PRIDE are valuable resources for large-scale data integration.
  • The construction of protein expression atlases is a promising avenue for advancing biological understanding.
  • Further development in data standardization and analysis methods will facilitate broader reuse of proteomics data.