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

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The complete peptide dictionary--a meta-proteomics resource.

Manor Askenazi1, Jarrod A Marto, Michal Linial

  • 1Department of Biological Chemistry, The Hebrew University of Jerusalem, Israel.

Proteomics
|November 18, 2010
PubMed
Summary
This summary is machine-generated.

Pep2Pro is a new web service for fast peptide-to-protein lookup. It helps identify species in complex samples by linking mass spectrometry-identified peptides to their source proteins.

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Area of Science:

  • Proteomics
  • Bioinformatics
  • Mass Spectrometry

Background:

  • Mass spectrometry (MS)-based proteomics identifies peptides, but linking them to specific proteins is indirect due to bottom-up experimental design.
  • Establishing a clear peptide-to-protein relationship is crucial for comprehensive protein identification in complex biological samples.

Purpose of the Study:

  • To develop a rapid web service, Pep2Pro, for efficient peptide-to-protein lookups.
  • To facilitate the systematic identification of proteins from observed peptides across a vast sequence database.

Main Methods:

  • Developed Pep2Pro, a high-performance web service for peptide-to-protein mapping.
  • Utilized a comprehensive UniRef100 database containing approximately 10 million protein sequences.
  • Reanalyzed existing metaproteomic datasets using the Pep2Pro service.

Main Results:

  • Pep2Pro provides fast and accurate protein lookups for identified peptides.
  • Reanalysis of metaproteomic data successfully identified taxon-specific peptides.
  • Demonstrated the ability to infer the presence of specific species within complex samples.

Conclusions:

  • Pep2Pro significantly enhances the interpretation of MS-based proteomics data.
  • The service aids in identifying species composition in complex metaproteomic samples.
  • Pep2Pro is a valuable tool for advancing protein identification and species-level analysis in proteomics.