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Related Concept Videos

MALDI-TOF Mass Spectrometry01:19

MALDI-TOF Mass Spectrometry

Mass spectrometry is a powerful characterization technique that can identify and separate a wide variety of compounds ranging from chemical to biological entities, based on their mass-to-charge ratio (m/z). The instruments that allow this detection, known as mass spectrometers, have three components: an ion source, a mass analyzer, and a detector. These spectrometers differ based on the nature of their ion source and analyzers.Matrix-assisted laser desorption ionization (MALDI) is a commonly...
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The ionization of a molecule into a molecular ion inside the mass spectrometer causes instability in the molecule's structure due to the loss of an electron. This eventually leads to the fragmentation or breaking of some bonds in the molecule. The fragmentation occurs predominantly at specific bonds to yield relatively stable fragments.
One type of fragmentation pattern is the cleavage of a single bond in the molecular ion. The cleavage leads to a radical and a cation. The cleavage can occur at...
Mass Spectrometry: Overview01:19

Mass Spectrometry: Overview

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 electron 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 behind a...
Mass Spectrometers01:16

Mass Spectrometers

This lesson details the instrumentation of a mass spectrometer—a physical instrument to perform mass spectrometry on analyte molecules and record the characteristic mass spectra. This is achieved via three chief functions:
Mass Spectrometry: Complex Analysis01:21

Mass Spectrometry: Complex Analysis

Mass spectrometry is an important technique for the identification of pure compounds. However, it has some limitations for the analysis of complex mixtures, often due to excessive fragmentation making the spectrum too complicated to decipher. Mass spectrometry can be combined with suitable separation methods in sequence, forming hyphenated methods, which are useful in the analysis of complex mixtures.
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Tandem Mass Spectrometry01:21

Tandem Mass Spectrometry

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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Leaf Spray Mass Spectrometry: A Rapid Ambient Ionization Technique to Directly Assess Metabolites from Plant Tissues
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MSDash: mass spectrometry database and search.

Zhan Wu1, Gilles Lajoie, Bin Ma

  • 1Department of Computer Science, University of Western Ontario, London, Ontario N6A 5B8, Canada. zwu47@csd.uwo.ca

Computational Systems Bioinformatics. Computational Systems Bioinformatics Conference
|August 1, 2009
PubMed
Summary
This summary is machine-generated.

This study introduces a new mass spectrometry data library and search method to efficiently find similar spectra. This approach enhances protein identification confidence and can cluster similar spectra for improved speed and accuracy.

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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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Combining Chemical Cross-linking and Mass Spectrometry of Intact Protein Complexes to Study the Architecture of Multi-subunit Protein Assemblies
10:01

Combining Chemical Cross-linking and Mass Spectrometry of Intact Protein Complexes to Study the Architecture of Multi-subunit Protein Assemblies

Published on: November 28, 2017

Area of Science:

  • Proteomics
  • Bioinformatics
  • Data Science

Background:

  • Mass spectrometry is widely used in proteomics, generating large public datasets.
  • Existing public mass spectrometry data repositories lack effective search functionalities.
  • Efficiently searching and analyzing these vast datasets is crucial for advancing proteomics research.

Purpose of the Study:

  • To develop a novel method for efficiently indexing and searching mass spectrometry data libraries.
  • To create a public online server demonstrating the speed and scalability of the developed search method.
  • To enhance protein identification confidence by comparing query spectra against a characterized database.

Main Methods:

  • Development of a new mass spectrometry data library.
  • Implementation of an efficient indexing and searching algorithm for spectral similarity.
  • Establishment of a public online server for data access and analysis.

Main Results:

  • The developed method demonstrates outstanding speed and scalability in searching mass spectrometry data.
  • The system successfully indexes and searches for similar spectra within the library.
  • The online server provides a platform for utilizing the novel search capabilities.

Conclusions:

  • The novel search method significantly improves protein identification confidence by leveraging a characterized mass spectrometry library.
  • The method can be independently used for clustering similar spectra, enhancing identification and quantification speed and accuracy.
  • This work addresses the need for effective search tools in public mass spectrometry data repositories, facilitating further proteomics discoveries.