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Related Concept Videos

Proteomics01:33

Proteomics

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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...
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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.
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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...
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Viewing the proteome: how to visualize proteomics data?

Eystein Oveland1, Thilo Muth, Erdmann Rapp

  • 1Proteomics Unit, Department of Biomedicine, University of Bergen, Bergen, Norway; KG Jebsen Centre for Multiple Sclerosis Research, Department of Clinical Medicine, University of Bergen, Bergen, Norway; Department of Clinical Medicine, University of Bergen, Bergen, Norway.

Proteomics
|December 16, 2014
PubMed
Summary
This summary is machine-generated.

This review explores proteomics software for visualizing and interpreting complex biological data. It highlights current solutions and future directions for making proteomics results more accessible.

Keywords:
BioinformaticsGraphsProteome databasesRaw dataVisualization

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Area of Science:

  • Biochemistry
  • Bioinformatics
  • Systems Biology

Background:

  • Proteomics is a key method for biological systems analysis.
  • High-throughput proteomics generates vast datasets, posing interpretation challenges.

Purpose of the Study:

  • To review proteomics software for data visualization and interpretation.
  • To discuss challenges and solutions in visualizing various proteomics data aspects.

Main Methods:

  • Overview of existing proteomics visualization software.
  • Discussion of visualization techniques for spectra, protein identification, quantification, and pathway analysis.

Main Results:

  • Identified unique challenges in visualizing different proteomics data types.
  • Highlighted effective visualization approaches and software examples.

Conclusions:

  • Effective data visualization is crucial for advancing proteomics research.
  • Future directions in proteomics data visualization are proposed.