Journal Article

emPAI Calc—for the estimation of protein abundance from large-scale identification data by liquid chromatography-tandem mass spectrometry

Kosaku Shinoda, Masaru Tomita and Yasushi Ishihama

in Bioinformatics

Volume 26, issue 4, pages 576-577
Published in print February 2010 | ISSN: 1367-4803
Published online December 2009 | e-ISSN: 1460-2059 | DOI: http://dx.doi.org/10.1093/bioinformatics/btp700
emPAI Calc—for the estimation of protein abundance from large-scale identification data by liquid chromatography-tandem mass spectrometry

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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.™

Availability: http://empai.iab.keio.ac.jp/; http://empai.iab.keio.ac.jp/supplement.php Source codes are available under Mozilla Public License.

Contact: y-ishi@ttck.keio.ac.jp

Supplementary Information: Supplementary data are available at Bioinformatics online.

Journal Article.  1398 words.  Illustrated.

Subjects: Bioinformatics and Computational Biology

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