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Related Concept Videos

Mass Analyzers: Common Types01:19

Mass Analyzers: Common Types

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The quadrupole mass analyzer consists of four cylindrical metal rods arranged in a diamond carrying a DC voltage and a radio-frequency AC voltage. The motion of ions through the quadrupole depends on the field strength, causing only ions of a certain m/z to resonate successfully and strike the detector at a given field strength. Though the transmission rate for these analyzers is high, the exact elemental composition of the sample is not determined because of low resolution; however, they are...
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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 Analyzers: Overview01:13

Mass Analyzers: Overview

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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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Mass Spectrometers01:16

Mass Spectrometers

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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:
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Inductively Coupled Plasma–Mass Spectrometry (ICP–MS): Overview01:19

Inductively Coupled Plasma–Mass Spectrometry (ICP–MS): Overview

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In inductively coupled plasma–mass spectrometry (ICP–MS), an inductively coupled plasma (ICP) torch is used as an atomizer and ionizer. Solid samples are dissolved and volatilized before being introduced into the high-temperature argon plasma, while solution samples are nebulized and passed through the high-temperature argon plasma. Plasma dissociates the analytes and ionizes their component atoms to form a mixture of positive ions and molecular species. The positive ions are then...
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Mass Spectrometry: Complex Analysis01:21

Mass Spectrometry: Complex Analysis

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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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Updated: Sep 12, 2025

Quantitative Proteomics Workflow using Multiple Reaction Monitoring Based Detection of Proteins from Human Brain Tissue
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Expanding Targeted Instrumentation for Discovery Applications: Complement Reporter Ion Quantification with a

Edward R Cruz1,2, Alex N T Johnson1,2,3, Vyas Pujari1,2

  • 1Department of Molecular Biology, Princeton University, Princeton, New Jersey 08544, United States.

Journal of Proteome Research
|August 6, 2025
PubMed
Summary
This summary is machine-generated.

A new method, ion-trap multiplexed tandem mass spectrometry (iTMTproC), offers accurate and cost-effective multiplexed shotgun proteomics. This approach rivals advanced instruments, enhancing protein quantification depth for biological research.

Keywords:
StellarTMTprocomplement reporter ionsmultiplexingquadrupole–ion trapshotgun proteomics

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Area of Science:

  • Proteomics
  • Analytical Chemistry
  • Biotechnology

Background:

  • Proteomic workflows are typically discovery-based or targeted, using different instrumentation.
  • High-resolution analyzers are common for discovery, while triple quadrupoles excel in targeted workflows.
  • Recent advances show quadrupole-ion trap instruments offer superior targeted performance.

Purpose of the Study:

  • To expand the capabilities of a quadrupole-ion trap platform for multiplexed shotgun proteomics.
  • To introduce and evaluate ion-trap multiplexed tandem mass spectrometry (iTMTproC) for quantitative proteomics.
  • To benchmark iTMTproC against established methods like MultiNotch MS³.

Main Methods:

  • Utilized a quadrupole-ion trap instrument (Stellar MS) for iTMTproC.
  • Performed benchmarking experiments with defined standards.
  • Validated the approach using a developmental time-series analysis of frog embryos.

Main Results:

  • iTMTproC demonstrated quantification accuracy and interference reduction comparable to MultiNotch MS³.
  • iTMTproC quantified slightly more proteins than MultiNotch MS³.
  • Proteomic data from iTMTproC in frog embryos closely matched MultiNotch MS³ results, with increased protein depth.

Conclusions:

  • Quadrupole-ion trap systems are versatile for highly accurate, multiplexed quantitative shotgun proteomics.
  • iTMTproC provides a cost-effective alternative for advanced proteomic analyses.
  • This extends the functionality of targeted instrumentation for broader proteomic applications.