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Related Concept Videos

Tandem Mass Spectrometry01:21

Tandem Mass Spectrometry

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Tandem mass spectrometry is a technique that uses multiple mass analyzers in series to obtain a higher selectivity and signal-to-noise ratio for the analyte. 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 collision-induced...
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Mass Spectrometry: Overview01:19

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Mass spectrometry is an analytical technique used to determine the molecular mass and molecular formula of a compound. The basic principle of mass spectrometry is to generate ions from the analyte molecule and measure these ion abundances against their molecular mass.  One common type of ionization, known as electrospray ionization or EI, bombards the analyte molecules in the gas phase with high-energy electron beams. The electron beams displace an electron from the molecule and leave...
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Combining Chemical Cross-linking and Mass Spectrometry of Intact Protein Complexes to Study the Architecture of Multi-subunit Protein Assemblies
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xiVIEW: Visualisation of Crosslinking Mass Spectrometry Data.

Colin W Combe1, Martin Graham1, Lars Kolbowski2

  • 1University of Edinburgh, School of Biological Sciences, Edinburgh EH9 3JR, UK.

Journal of Molecular Biology
|September 5, 2024
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Summary

Researchers developed xiVIEW, a web-based tool for analyzing crosslinking mass spectrometry (MS) data. This application integrates mass spectrometry results with network and structural visualizations, aiding biological mechanism investigations.

Keywords:
data analysisprotein networkssoftwarestandardsstructures

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Area of Science:

  • Biochemistry
  • Structural Biology
  • Bioinformatics

Background:

  • Crosslinking mass spectrometry (MS) is crucial for determining protein complex structures and interaction networks.
  • A lack of integrated visualization tools hinders the use of crosslinking MS data for biological insights.

Purpose of the Study:

  • To develop xiVIEW, a web-based application for streamlined crosslinking MS data analysis.
  • To provide a user-friendly platform integrating diverse data types for biological investigation.

Main Methods:

  • Development of a web-based application, xiVIEW.
  • Integration of mass spectrometric data, network visualization, UniProtKB annotations, and 3D structures.
  • Implementation of a standards-compliant parser for improved data integration.

Main Results:

  • xiVIEW offers a user-friendly interface for coordinated data views.
  • The tool supports accessible visualization of crosslinking MS data.
  • xiVIEW promotes standard file formats for enhanced data integration.

Conclusions:

  • xiVIEW empowers researchers to analyze crosslinking MS data more effectively.
  • The application facilitates deeper investigations into complex biological systems.
  • xiVIEW is expected to advance crosslinking MS-inspired research.