This software is designed for analysis of phosphopeptide LC-MS/MS data. It first usees the Ascore method (see the abstract on PubMed) to more accurately determine the location of the phosphorylated residues in a peptide. It then uses linear discriminant analysis (LDA) to estimate an overall false discovery rate (FDR).

Processing details for this software can be found in the manuscript: "Linear Discriminant Analysis-Based Estimation of the False Discovery Rate for Phosphopeptide Identifications", Xiuxia Du et. al. in press at J. Proteome Res.

Software not yet available; please check back in March 2008

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Version	v1.0	Requirements	Microsoft NET Framework 1.1
Date Updated	February 22, 2008	File Size (Software Tool)	n/a
Registration Required	No	File size (Source Code)	0.0 MB (ZIP)
Developers	Xiuxia Du
Comments	n/a

Acknowledgment

All publications that utilize this software should provide appropriate acknowledgement to PNNL and the OMICS.PNL.GOV website. However, if the software is extended or modified, then any subsequent publications should include a more extensive statement, using this text or a similar variant:

Portions of this research were supported by the NIH National Center for Research Resources and the U.S. Department of Energy (DOE) Office of Biological and Environmental Research Low Dose Radiation Research Program. Experiments and data analyses were performed in the W.R. Wiley Environmental Molecular Science Laboratory, a DOE national scientific user facility located at Pacific Northwest National Laboratory (PNNL). PNNL is a multi-program national laboratory operated for the DOE by Battelle Memorial Institute under contract DE-AC05-76RLO 1830.