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| Seminar Schedule (Seminar Organizer: Prof. Ziv Bar-Joseph) | |
Machine Learning Lunch Seminar
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Fall 2008 Seminar
Date: November 10, 2008 Time: 4:30 PM - 00:00 AM Location: CIC Bldg, Lower Level Other Speaker: William Noble Associate Professor, University of Washington Title: Machine learning analysis of shotgun proteomics data Abstract: Mass spectrometry has become the most widely used tool for the characterization of proteins within complex mixtures. In this talk, I will describe several successful applications of machine learning to improve the rate at which we can correctly assign peptide sequences to observed tandem mass spectra. We use supervised and semi-supervised discriminative learning methods to train a classifier that discriminates between correctly and incorrectly annotated spectra. Unlike previous methods, the classifier can be trained dynamically on each given data set, thereby adjusting to particular characteristics of the sample preparation protocol, machine platform, calibration and chromatography conditions. We have also trained a dynamic Bayesian network to model the process of peptide fragmentation within the mass spectrometer. The resulting model yields useful insights into fragmentation biochemistry as well as significantly improved peptide identification performance.
