Jove
Visualize
Contact Us
JoVE
x logofacebook logolinkedin logoyoutube logo
ABOUT JoVE
OverviewLeadershipBlogJoVE Help Center
AUTHORS
Publishing ProcessEditorial BoardScope & PoliciesPeer ReviewFAQSubmit
LIBRARIANS
TestimonialsSubscriptionsAccessResourcesLibrary Advisory BoardFAQ
RESEARCH
JoVE JournalMethods CollectionsJoVE Encyclopedia of ExperimentsArchive
EDUCATION
JoVE CoreJoVE BusinessJoVE Science EducationJoVE Lab ManualFaculty Resource CenterFaculty Site
Terms & Conditions of Use
Privacy Policy
Policies

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...

You might also read

Related Articles

Articles linked to this work by shared authors, journal, and citation graph.

Sort by
Same author

Depletion-Free Automated Enrichment of Serum Glycopeptides for High-Throughput Clinical Glycoproteomics.

Molecular & cellular proteomics : MCP·2026
Same author

RPS6KA3/RSK2-mediated phosphorylation of DRAM2 promotes lysosomal targeting and autophagic flux in melanoma.

Autophagy·2026
Same author

StrucPTM: a database of structurally validated protein modifications and their conformational variation.

Bioinformatics (Oxford, England)·2026
Same author

RNA dicing promotes the expression of an oncogenic JAK1 isoform.

Cell reports·2026
Same author

Non-Reducing Proteomics Reveals Disulfide-dependent Proteoform Remodeling Under Oxidative Stress.

Molecular & cellular proteomics : MCP·2026
Same author

Multi-Omics-Based Biological Mechanisms for Childhood Allergen Sensitization Trajectories: COCOA Study.

Allergy·2026

Related Experiment Video

Updated: Jun 4, 2026

Deep Proteome Profiling by Isobaric Labeling, Extensive Liquid Chromatography, Mass Spectrometry, and Software-assisted Quantification
10:37

Deep Proteome Profiling by Isobaric Labeling, Extensive Liquid Chromatography, Mass Spectrometry, and Software-assisted Quantification

Published on: November 15, 2017

High-throughput peptide quantification using mTRAQ reagent triplex.

Joo Young Yoon1, Jeonghun Yeom, Heebum Lee

  • 1School of Computer Science and Engineering, Seoul National University, Seoul 151-742, Korea. jyyoon@theory.snu.ac.kr

BMC Bioinformatics
|February 24, 2011
PubMed
Summary

A new algorithm accurately quantifies peptides in triplex mTRAQ experiments by resolving isotopic clusters and elution overlaps. This method enhances throughput for mass spectrometry-based proteomics.

More Related Videos

Quantification of Proteins Using Peptide Immunoaffinity Enrichment Coupled with Mass Spectrometry
06:09

Quantification of Proteins Using Peptide Immunoaffinity Enrichment Coupled with Mass Spectrometry

Published on: July 31, 2011

Automated Sample Multiplexing by using Combined Precursor Isotopic Labeling and Isobaric Tagging (cPILOT)
09:24

Automated Sample Multiplexing by using Combined Precursor Isotopic Labeling and Isobaric Tagging (cPILOT)

Published on: December 18, 2020

Related Experiment Videos

Last Updated: Jun 4, 2026

Deep Proteome Profiling by Isobaric Labeling, Extensive Liquid Chromatography, Mass Spectrometry, and Software-assisted Quantification
10:37

Deep Proteome Profiling by Isobaric Labeling, Extensive Liquid Chromatography, Mass Spectrometry, and Software-assisted Quantification

Published on: November 15, 2017

Quantification of Proteins Using Peptide Immunoaffinity Enrichment Coupled with Mass Spectrometry
06:09

Quantification of Proteins Using Peptide Immunoaffinity Enrichment Coupled with Mass Spectrometry

Published on: July 31, 2011

Automated Sample Multiplexing by using Combined Precursor Isotopic Labeling and Isobaric Tagging (cPILOT)
09:24

Automated Sample Multiplexing by using Combined Precursor Isotopic Labeling and Isobaric Tagging (cPILOT)

Published on: December 18, 2020

Area of Science:

  • Proteomics
  • Mass Spectrometry
  • Biotechnology

Background:

  • Protein quantification is crucial in proteomics.
  • Stable isotope labeling, like mTRAQ, is used for relative quantification.
  • Triplex mTRAQ offers higher sample throughput than duplex methods.

Purpose of the Study:

  • To develop a novel data analysis algorithm for accurate peptide quantification in triplex mTRAQ experiments.
  • To improve accuracy by addressing isotopic cluster overlap and elution area determination.

Main Methods:

  • Developed a schematic model for triplex overlapping isotopic clusters.
  • Solved cubic equations derived from the model to separate isotopic clusters.
  • Implemented an algorithm to automatically determine and correct for overlapping peptide elution areas.
  • Validated the algorithm using standard protein mixture experiments.

Main Results:

  • The algorithm successfully identified and separated overlapping triplex isotopic clusters.
  • Accurate determination of peptide elution areas was achieved, even with overlaps.
  • Quantification accuracy was significantly improved in triplex mTRAQ experiments.

Conclusions:

  • The developed algorithm accurately quantifies peptides in triplex mTRAQ experiments.
  • Software implementation is compatible with the Trans-Proteomic Pipeline (TPP).
  • Enables high-throughput proteomics data analysis.