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Related Concept Videos

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...
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.
GC–MS is a powerful hyphenated method commonly used in forensics and environmental...
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...
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:
Quantitative Analysis01:12

Quantitative Analysis

Quantitative analysis is a technique for measuring the amount of specific constituents in a sample. When the sample's composition is unknown, qualitative analysis is performed first to identify its components, which ensures that the correct substances are measured during the quantitative phase.
In quantitative analysis, two key measurements are made: the sample quantity and a property proportional to the amount of the analyte (the substance being analyzed). This forms the basis of the method...
Mass Analyzers: Overview01:13

Mass Analyzers: Overview

The mass analyzer is a crucial component of the mass spectrometer. In the ionization chamber, the vaporized sample is bombarded with a high-energy electron beam to generate a radical cation and further fragment into neutral molecules, radicals, and cations. A series of negatively charged accelerator plates accelerate the cations into the mass analyzer. The mass analyzer separates ions according to their mass-to-charge (m/z) ratios and then directs them to the detector. The common types of mass...

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Related Experiment Video

Updated: Jun 24, 2026

Metabolic Labeling and Membrane Fractionation for Comparative Proteomic Analysis of Arabidopsis thaliana Suspension Cell Cultures
11:44

Metabolic Labeling and Membrane Fractionation for Comparative Proteomic Analysis of Arabidopsis thaliana Suspension Cell Cultures

Published on: September 28, 2013

StatQuant: a post-quantification analysis toolbox for improving quantitative mass spectrometry.

Bas van Breukelen1, Henk W P van den Toorn, Madalina M Drugan

  • 1Biomolecular Mass Spectrometry and Proteomics Group, Utrecht University, Utrech, The Netherlands. b.vanbreukelen@uu.nl

Bioinformatics (Oxford, England)
|April 2, 2009
PubMed
Summary
This summary is machine-generated.

StatQuant is a new software tool that refines mass spectrometric protein quantitation data. It provides statistical methods to validate and improve confidence in protein ratio results from quantitative proteomics.

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Navigating the Mass Spectrometry-Based Proteomic Data Using Free Computational Tools
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Last Updated: Jun 24, 2026

Metabolic Labeling and Membrane Fractionation for Comparative Proteomic Analysis of Arabidopsis thaliana Suspension Cell Cultures
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Published on: September 28, 2013

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Navigating the Mass Spectrometry-Based Proteomic Data Using Free Computational Tools
07:01

Navigating the Mass Spectrometry-Based Proteomic Data Using Free Computational Tools

Published on: August 19, 2025

Area of Science:

  • Proteomics
  • Bioinformatics
  • Computational Biology

Background:

  • Mass spectrometric protein quantitation generates large datasets on peptide and protein abundances.
  • Automated software packages calculate differential abundance data from peptide intensity ratios.
  • Post-processing is needed to validate and refine quantitation results for improved confidence.

Purpose of the Study:

  • To introduce StatQuant, a software tool designed for post-processing quantitative proteomics data.
  • To provide researchers with statistical methods for validating and refining protein quantitation results.

Main Methods:

  • StatQuant offers a suite of statistical tools for data processing, filtering, comparison, and representation.
  • The software is compatible with data from various quantitative proteomics software packages, such as MSQuant.

Main Results:

  • StatQuant enables researchers to achieve higher confidence in their obtained protein ratios.
  • The tool facilitates the refinement of differential abundance data derived from mass spectrometry.

Conclusions:

  • StatQuant enhances the reliability of quantitative proteomics studies.
  • The software provides essential post-processing capabilities for mass spectrometry-based protein abundance analysis.