PhosphoScan: A Probability-Based Method for Phosphorylation Site Prediction Using MS2/MS3 Pair Information

@article{citeulike:2891490, abstract = {Abstract: Phosphopeptide identification and phosphorylation site localization are crucial aspects of many biological studies. Furthermore, multiple phosphorylations of peptides make site localization even more difficult. We developed a probability-based method to unambiguously determine phosphorylation sites within phosphopeptides using MS2/3 pair information. A comparison test was performed with SEQUEST and MASCOT predictions using a spectral data set from a synthetic doubly phosphorylated peptide, and the results showed that PhosphoScan analysis yielded a 63\% phosphopeptide localization improvement compared with SEQUEST and a 57\% improvement compared with MASCOT.}, address = {Greenebaum Cancer Center, University of Maryland, Baltimore, Maryland 21201, Department of Radiation Oncology, University of Maryland, Baltimore, Maryland 21201, Department of Microbiology and Immunology, University of Maryland, Baltimore, Maryland 21201, Department of Computational Biology, University of Southern California, Los Angeles, California 90089, and Department of Anatomy and Neurobiology, University of Maryland, Baltimore, Maryland 21201}, author = {Wan, Yunhu and Cripps, Diane and Thomas, Stefani and Campbell, Patricia and Ambulos, Nicholas and Chen, Ting and Yang, Austin }, citeulike-article-id = {2891490}, doi = {10.1021/pr700773p}, journal = {J. Proteome Res.}, keywords = {mass-spec, phosphorylation, prediction, probability}, month = {June}, posted-at = {2008-06-13 14:53:58}, priority = {2}, title = {PhosphoScan: A Probability-Based Method for Phosphorylation Site Prediction Using MS2/MS3 Pair Information}, url = {http://dx.doi.org/10.1021/pr700773p}, year = {2008} }

TY - JOUR ID - citeulike:2891490 L3 - citeulike-article-id:2891490 TI - PhosphoScan: A Probability-Based Method for Phosphorylation Site Prediction Using MS2/MS3 Pair Information JF - J. Proteome Res. AD - Greenebaum Cancer Center, University of Maryland, Baltimore, Maryland 21201, Department of Radiation Oncology, University of Maryland, Baltimore, Maryland 21201, Department of Microbiology and Immunology, University of Maryland, Baltimore, Maryland 21201, Department of Computational Biology, University of Southern California, Los Angeles, California 90089, and Department of Anatomy and Neurobiology, University of Maryland, Baltimore, Maryland 21201 N2 - Abstract: Phosphopeptide identification and phosphorylation site localization are crucial aspects of many biological studies. Furthermore, multiple phosphorylations of peptides make site localization even more difficult. We developed a probability-based method to unambiguously determine phosphorylation sites within phosphopeptides using MS2/3 pair information. A comparison test was performed with SEQUEST and MASCOT predictions using a spectral data set from a synthetic doubly phosphorylated peptide, and the results showed that PhosphoScan analysis yielded a 63% phosphopeptide localization improvement compared with SEQUEST and a 57% improvement compared with MASCOT. KW - mass-spec KW - phosphorylation KW - prediction KW - probability AU - Wan, Yunhu AU - Cripps, Diane AU - Thomas, Stefani AU - Campbell, Patricia AU - Ambulos, Nicholas AU - Chen, Ting AU - Yang, Austin PY - 2008/06/13/ UR - http://dx.doi.org/10.1021/pr700773p ER -