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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...
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...

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A Streamlined Approach for Mass Spectrometry-Based Proteomics Using Selected Tissue Regions
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A Streamlined Approach for Mass Spectrometry-Based Proteomics Using Selected Tissue Regions

Published on: April 18, 2025

Bioinformatics for LC-MS/MS-based proteomics.

Richard J Jacob1

  • 1Matrix Science Inc., Boston, MA, USA.

Methods in Molecular Biology (Clifton, N.J.)
|September 15, 2010
PubMed
Summary
This summary is machine-generated.

Modern mass spectrometry generates complex data requiring bioinformatics software for analysis. This review covers essential software applications for liquid chromatography-tandem mass spectrometry (LC-MS/MS) data analysis.

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Area of Science:

  • Analytical Chemistry
  • Bioinformatics
  • Biotechnology

Background:

  • Mass spectrometry instrumentation has advanced significantly, producing large and complex datasets.
  • Manual analysis of modern mass spectrometry data is infeasible.
  • Bioinformatics has become crucial for processing and interpreting this data.

Purpose of the Study:

  • To review available bioinformatics software applications for liquid chromatography-tandem mass spectrometry (LC-MS/MS) data analysis.
  • To provide an overview of tools supporting various LC-MS/MS analysis tasks.

Main Methods:

  • Literature review of bioinformatics software for LC-MS/MS.
  • Categorization of software based on data analysis tasks.

Main Results:

  • A wide array of bioinformatics software applications exist for LC-MS/MS data analysis.
  • Software is continually updated and new applications are developed to meet evolving needs.

Conclusions:

  • Bioinformatics software is indispensable for modern mass spectrometry data analysis.
  • The rapid evolution of software necessitates ongoing review and adaptation.