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  A practical guide to the ICPL_ESIQuant software for ICPL-based quantitative proteomics

Brunner, A., Kellermann, J., & Lottspeich, F. (2014). A practical guide to the ICPL_ESIQuant software for ICPL-based quantitative proteomics. Biochimica et Biophysica Acta - Proteins Proteomics, 1844(1, Part A), 21-28. doi:10.1016/j.bbapap.2013.02.019.

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 Creators:
Brunner, Achim1, Author              
Kellermann, Josef1, Author              
Lottspeich, Friedrich1, Author              
Affiliations:
1Lottspeich, Friedrich / Protein Analysis, Max Planck Institute of Biochemistry, Max Planck Society, ou_1565158              

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Free keywords: STRATEGYICPL; Isotope-coded protein label; Mass spectrometry; Protein quantification software; Quantitative proteomics;
 Abstract: ICPL_ESIQuant is a proteomics software tool for quantitatively analyzing large mass spectrometric datasets acquired from ICPL based proteomics experiments. It is able to process mass spectrometric data from various vendors and implements results from the Mascot search engine to generate protein and peptide result tables. This protocol briefly introduces ICPL_ESIQuant and presents a detailed step by step tutorial, how to use the software with MS datasets obtained from ICPL duplex, triplex and quadruplex experiments. Requiring MS raw data in .mzXML file format and Mascot search results in .dat format as input, ICPL_ESIQuant reliably quantifies ICPL labeled proteins and provides additional information about all detected, sequenced and identified features in the sample. The software supports both the shotgun and the directed proteomics strategy, enabling the user to apply mass inclusion lists for identifying peptides not fragmented in the first MS cycle. The software together with a test dataset is freely available under http://sourceforge.net/projects/icplquant/. This article is part of a Special Issue entitled: Computational Proteomics in the Post-Identification Era. Guest Editors: Martin Eisenacher and Christian Stephan. (C) 2013 Elsevier B.V. All rights reserved.

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Language(s): eng - English
 Dates: 2014-01
 Publication Status: Published in print
 Pages: 8
 Publishing info: -
 Table of Contents: -
 Rev. Type: Peer
 Degree: -

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Title: Biochimica et Biophysica Acta - Proteins Proteomics
  Alternative Title : BBA-Proteins Proteomics
  Alternative Title : Computational Proteomics in the Post-Identification Era
Source Genre: Journal
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Publ. Info: PO BOX 211, 1000 AE AMSTERDAM, NETHERLANDS : ELSEVIER SCIENCE BV
Pages: - Volume / Issue: 1844 (1, Part A) Sequence Number: - Start / End Page: 21 - 28 Identifier: ISSN: 1570-9639