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Title

PICarver: a software tool and strategy for peptides isoelectric focusing

Authors
Hernandez, Céline
Published in Journal of Proteome Research. 2008, vol. 7, no. 10, p. 4336-45
Abstract The use of isoelectric focusing as first dimension of separation is a new trend in shotgun proteomics. In all applications using this approach, peptides are separated into equitable fractions, whereas theoretical distribution of peptides according to p I is heterogeneous. We present the development of a new tool and strategy that generates a fractionation scheme resulting in almost even distribution of peptides per fraction, based on theoretical and experimental data. The "pICarver" software tool also increases the throughput of the approach by reducing the number of fractions and merging the peptide-poor regions. A set of isoelectric point fluorescent peptide markers was also developed in combination with the pICarver program to calibrate the pH gradient of commercially available strips. These markers enhanced the precision of pICarver predications. The overall strategy allowed detecting false positive identification and post-translational modifications. The software tool is freely available on www.expasy.org/tools/pICarver.
Keywords Bacterial Proteins/analysisFluorescent Dyes/metabolismIsoelectric Focusing/instrumentation/methodsPeptides/analysisProteome/analysisProteomics/methodsSoftwareStaphylococcus aureus/chemistry
Stable URL https://archive-ouverte.unige.ch/unige:1306
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Other version: http://pubs.acs.org/doi/full/10.1021/pr8002672
Identifiers
PMID: 18783261
Structures
Research group La protéomique au service de la clinique (270)

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Deposited on : 2009-04-02

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