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Related Concept Videos

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...
Peptide Bonds02:43

Peptide Bonds

A peptide bond covalently attaches amino acids through a dehydration reaction. One amino acid's carboxyl group and another amino acid's amino group combine, releasing a water molecule. The resulting bond is the peptide bond. The products that such linkages form are peptides. As more amino acids join this growing chain, the resulting chain is a polypeptide. Each polypeptide has a free amino group at one end. This end has the N-terminal, or the amino-terminal, and the other end has a free...
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: Jun 17, 2026

A Fast and Quantitative Method for Post-translational Modification and Variant Enabled Mapping of Peptides to Genomes
09:10

A Fast and Quantitative Method for Post-translational Modification and Variant Enabled Mapping of Peptides to Genomes

Published on: May 22, 2018

The PeptideAtlas Project.

Eric W Deutsch1

  • 1Institute for Systems Biology, Seattle, WA, USA. edeutsch@systemsbiology.org

Methods in Molecular Biology (Clifton, N.J.)
|December 17, 2009
PubMed
Summary
This summary is machine-generated.

PeptideAtlas provides a comprehensive database of observed peptides from mass spectrometry data. This resource aids researchers in experiment planning and genome annotation, particularly for targeted proteomics.

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Peptide-based Identification of Functional Motifs and their Binding Partners
14:28

Peptide-based Identification of Functional Motifs and their Binding Partners

Published on: June 30, 2013

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Last Updated: Jun 17, 2026

A Fast and Quantitative Method for Post-translational Modification and Variant Enabled Mapping of Peptides to Genomes
09:10

A Fast and Quantitative Method for Post-translational Modification and Variant Enabled Mapping of Peptides to Genomes

Published on: May 22, 2018

Peptide-based Identification of Functional Motifs and their Binding Partners
14:28

Peptide-based Identification of Functional Motifs and their Binding Partners

Published on: June 30, 2013

Area of Science:

  • Proteomics
  • Bioinformatics
  • Computational Biology

Background:

  • Tandem mass spectrometry generates large datasets of peptide information.
  • Integrating and analyzing these datasets is crucial for biological discovery.
  • Existing resources may lack multi-species coverage or standardized analysis.

Purpose of the Study:

  • To present PeptideAtlas as a unified, multi-species compendium of peptides.
  • To describe the reprocessing pipeline and data exploration tools.
  • To highlight the utility of PeptideAtlas for research applications.

Main Methods:

  • Collection of raw mass spectrometry data from the scientific community.
  • Reprocessing data through an advanced, uniform analysis and validation pipeline.
  • Loading results into a database for web-based data exploration.

Main Results:

  • PeptideAtlas offers a continuously updated, multi-species peptide compendium.
  • Standardized reprocessing ensures data quality and comparability.
  • Web tools facilitate easy access and data mining.

Conclusions:

  • PeptideAtlas is a valuable resource for proteomics research.
  • It supports experiment planning, genome annotation, and data mining.
  • The platform is particularly beneficial for targeted proteomics experiment design.