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Updated: Jul 3, 2026

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

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

Published on: November 15, 2017

DirecTag: accurate sequence tags from peptide MS/MS through statistical scoring.

David L Tabb¹, Ze-Qiang Ma, Daniel B Martin

¹Mass Spectrometry Research Center, Vanderbilt University Medical Center, Nashville, Tennessee 37232-8575, USA. david.l.tabb@vanderbilt.edu

Journal of Proteome Research

|July 18, 2008

Summary

DirecTag is a new open-source algorithm that accurately and quickly identifies peptide sequences from mass spectrometry data. It surpasses existing methods in speed and precision for shotgun proteomics analysis.

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

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Published on: October 15, 2019

Area of Science:

Proteomics
Mass Spectrometry
Bioinformatics

Background:

Shotgun proteomics relies on algorithms like Sequest for peptide identification from tandem mass spectra.
Accurate and efficient peptide identification is crucial for advancing proteomic research.

Purpose of the Study:

To develop a novel, open-source algorithm for inferring partial sequence tags directly from observed fragment ions in mass spectrometry.
To improve the accuracy and speed of peptide identification in shotgun proteomics.

Main Methods:

Developed DirecTag, an open-source algorithm utilizing three scoring systems: peak intensity, m/z fidelity, and complementarity.
Evaluated DirecTag's performance against InsPecT and GutenTag using diverse mass spectrometry data sets.

Main Results:

DirecTag demonstrated reproducible superiority in both accuracy and speed compared to InsPecT and GutenTag.
The algorithm effectively infers partial sequence tags directly from experimental mass spectrometry data.

Conclusions:

DirecTag offers a significant advancement in peptide identification for shotgun proteomics.
The open-source availability of DirecTag facilitates its adoption and further development in the scientific community.