10.1021/pr8002672.s009
Ali R. Vaezzadeh
Ali R.
Vaezzadeh
Céline Hernandez
Céline
Hernandez
Oscar Vadas
Oscar
Vadas
Jacques J. M. Deshusses
Jacques
J. M. Deshusses
Pierre Lescuyer
Pierre
Lescuyer
Frédérique Lisacek
Frédérique
Lisacek
Denis F. Hochstrasser
Denis F.
Hochstrasser
pICarver: A Software Tool and Strategy for Peptides Isoelectric Focusing
American Chemical Society
2008
shotgun proteomics
peptide markers
pICarver program
isoelectric point
strategy
approach
Software Tool
pH gradient
fractionation scheme
pICarver predications
software tool
Peptides Isoelectric FocusingThe use
2008-10-03 00:00:00
Journal contribution
https://acs.figshare.com/articles/journal_contribution/pICarver_A_Software_Tool_and_Strategy_for_Peptides_Isoelectric_Focusing/2910148
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>I</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.