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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...
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Tandem mass spectrometry is a technique that uses multiple mass analyzers in series to obtain a higher selectivity and reduce chemical noise during analyte detection. Instruments with multiple analyzers separated by an interaction cell enable secondary fragmentation and selected study of the fragment ions.Secondary fragmentations occur in the interaction cell and can be induced by various factors. Fragmentation induced by collision with inert gases, such as N2, Ar, He, etc., is called...
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Comprehensive Workflow of Mass Spectrometry-based Shotgun Proteomics of Tissue Samples
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Published on: November 13, 2021

An iterative strategy for precursor ion selection for LC-MS/MS based shotgun proteomics.

Alexandra Zerck1, Eckhard Nordhoff, Anja Resemann

  • 1Max Planck Institute for Molecular Genetics, Department Vertebrate Genomics, Ihnestr. 63-73, D-14195 Berlin, Germany. zerck@molgen.mpg.de

Journal of Proteome Research
|May 1, 2009
PubMed
Summary

This study introduces a new method for selecting precursor ions in liquid chromatography-mass spectrometry (LC-MS) to improve protein identification efficiency. The novel approach reduces data redundancy and analysis time, enhancing the detection of low-abundance proteins.

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Selected Reaction Monitoring Mass Spectrometry for Absolute Protein Quantification
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Published on: August 17, 2015

Area of Science:

  • Proteomics
  • Analytical Chemistry
  • Biochemistry

Background:

  • Current liquid chromatography-mass spectrometry (LC-MS) precursor ion selection often prioritizes high-abundance peptides.
  • This can lead to over-sampling of abundant proteins and under-sampling of low-abundance proteins.
  • Consequently, the identification of low-abundance proteins may be missed in MS/MS analysis.

Purpose of the Study:

  • To develop a novel, iterative, and result-driven precursor ion selection strategy for LC-MS.
  • To enhance the efficiency of MS/MS analysis by reducing data redundancy and analysis time.
  • To improve the identification of low-abundance proteins.

Main Methods:

  • A new iterative and result-driven precursor ion selection strategy was developed.
  • The method was simulated on an existing dataset to evaluate its performance.
  • Comparisons were made against existing result-driven strategies.

Main Results:

  • The novel approach significantly increases MS/MS analysis efficiency.
  • Data redundancy and analysis time are decreased.
  • Performance was evaluated across varying mass accuracy, database size, and sample complexity.

Conclusions:

  • The proposed precursor ion selection method offers a more efficient approach to LC-MS analysis.
  • It improves the identification of proteins, particularly those present in lower abundance.
  • This strategy holds potential for advancing proteomic research by optimizing data acquisition.