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Published on: November 15, 2017
Computational approaches to peptide identification via tandem MS
1Faculty of Life Sciences, University of Manchester, Michael Smith Building, Manchester, UK. Simon.hubbard@manchester.ac.uk
Methods in Molecular Biology (Clifton, N.J.)
|December 17, 2009
Summary
This study explains how to identify peptides in proteomics using database searching. It covers methods for comparing spectra and validating results for accurate protein identification.
Area of Science:
- Proteomics
- Bioinformatics
- Analytical Chemistry
Background:
- Peptide identification is crucial for inferring protein presence in samples.
- Accurate peptide identification relies on matching tandem mass spectra to amino acid sequences.
- Database searching assumes known peptide sequences are available for comparison.
Purpose of the Study:
- To provide an overview of common software tools for peptide identification via database searching.
- To explain methods for comparing experimental and theoretical spectra.
- To detail validation techniques for increasing confidence in peptide assignments.
Main Methods:
- Database searching of protein sequences.
- Comparison of experimental tandem mass spectra with theoretical spectra.
- Statistical validation of peptide-spectrum matches.
Main Results:
- Overview of algorithms used in popular peptide identification software.
- Explanation of spectral comparison strategies.
- Methods for assessing the statistical significance of identifications.
Conclusions:
- Understanding database search methods enhances the interpretation of proteomic data.
- Appropriate validation increases confidence in protein identifications.
- Informed choices in software and methods lead to more reliable proteomic results.
Related Concept Videos
01:33Peptide 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...
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