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Related Experiment Video

Updated: May 16, 2026

Enhanced Sample Multiplexing of Tissues Using Combined Precursor Isotopic Labeling and Isobaric Tagging cPILOT

Enhanced Sample Multiplexing of Tissues Using Combined Precursor Isotopic Labeling and Isobaric Tagging cPILOT

Published on: May 1, 2017

Inserting Pre-Analytical Chromatographic Priming Runs Significantly Improves Targeted Pathway Proteomics With Sample

Steven R Shuken¹, Qing Yu¹, Steven P Gygi¹

¹Department of Cell Biology, Harvard Medical School, 240 Longwood Ave, Boston, MA 02115, USA.

Biorxiv : the Preprint Server for Biology

|February 19, 2024

Summary

GoDigViewer software improves targeted proteomics by introducing "priming runs," significantly increasing peptide quantification success rates for complex protein assays.

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Last Updated: May 16, 2026

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Published on: May 1, 2017

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

Published on: December 18, 2020

Area of Science:

Proteomics
Mass Spectrometry
Computational Biology

Background:

GoDig is a targeted proteomics platform using tandem mass tags (TMT) for high throughput.
Limited peptide-level quantification success hinders analysis of challenging proteins.

Approach:

Developed GoDigViewer software for detailed visualization of GoDig runs.
Implemented a new acquisition mode using "priming runs" for improved elution order calibration.

Key Points:

Priming runs significantly enhance peptide quantification success rates (>97% for 400 targets, >95% for 200 difficult targets).
Enabled a quantitative assay for 125 macroautophagy proteins with >95% success.
Revealed differential macroautophagy protein expression across four human cell lines.

Conclusions:

GoDigViewer and priming runs optimize GoDig assays for broader proteomic applications.
This approach facilitates the study of complex proteomes and biological pathways.