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Related Experiment Video

Updated: Apr 29, 2026

Detection of Rare Genomic Variants from Pooled Sequencing Using SPLINTER

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Published on: June 23, 2012

GutenTag: high-throughput sequence tagging via an empirically derived fragmentation model.

David L Tabb¹, Anita Saraf, John R Yates

¹SR11 Department of Cell Biology, The Scripps Research Institute, 10550 North Torrey Pines Road, La Jolla, California 92037, USA.

Analytical Chemistry

|December 4, 2003

Summary

GutenTag is a novel algorithm for shotgun proteomics that identifies peptides missed by traditional methods like SEQUEST. It accurately detects peptides with unknown modifications and sequence variations, improving protein identification in complex samples.

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Area of Science:

Proteomics
Biochemistry
Bioinformatics

Background:

Shotgun proteomics uses liquid chromatography and tandem mass spectrometry to identify proteins in complex mixtures.
Database search algorithms like SEQUEST are standard for analyzing peptide mass spectra.

Purpose of the Study:

Introduce GutenTag, a new sequence tag database search algorithm.
Enable identification of peptides with unknown posttranslational modifications or sequence variations.
Automate peptide identification from mass spectra.

Main Methods:

GutenTag infers partial sequence tags directly from spectra.
It efficiently searches sequence databases for matching peptides.
Evaluates best matches using spectral fragment ions.
Compares GutenTag accuracy against SEQUEST using a defined protein mixture.

Main Results:

Both GutenTag and SEQUEST successfully identified modified and unmodified peptides.
GutenTag identified peptides missed by SEQUEST in a human lens sample.
These missed peptides were due to sequence polymorphisms and posttranslational modifications.
GutenTag analyzed over 33,000 spectra.

Conclusions:

GutenTag enhances protein identification accuracy in shotgun proteomics.
The algorithm is effective for detecting peptides with sequence variations and PTMs.
GutenTag offers improved analysis over existing methods for complex biological samples.