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Updated: Jun 17, 2026

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Deep Proteome Profiling by Isobaric Labeling, Extensive Liquid Chromatography, Mass Spectrometry, and Software-assisted Quantification
Published on: November 15, 2017
emPAI Calc--for the estimation of protein abundance from large-scale identification data by liquid
Kosaku Shinoda1, Masaru Tomita, Yasushi Ishihama
1Human Metabolome Technologies, Inc., Tsuruoka, Yamagata, Japan.
Bioinformatics (Oxford, England)
|December 25, 2009
Abstract
Summary:
emPAI Calc is an open-source web application for the estimation of protein abundance. It uses the correlation between the number of identified peptides and protein abundance in mass spectrometry-based proteomic experiments. The program is the first implementation of our previously reported emPAI algorithm; it calculates the emPAI from the protein identification results obtained by database search engines such as Mascot.

