Mass Spectrometry Data Analysis in Proteomics

Introduction to Mass Spectrometry-Based Proteomics.- LC-MS Spectra Processing.- Isotopic Distributions.- Retention Time Prediction and Protein Identification.- Algorithms for Database Dependent Search of MSMS Data.- Interpretation of Tandem Mass Spectra of Post-Translationally Modified Peptides.- Improving Peptide Identification Using Empirical Scoring Systems.- Methods and Algorithms for Quantitative Proteomics by Mass Spectrometry.- Computational Approaches to Selected Reaction Monitoring (SRM) Assay Design.- Feature Selection and Machine Learning with Mass Spectrometry Data.- Considerations in the Analysis of Hydrogen Exchange Mass Spectrometry Data.- Permethylated N-Glycan Analysis with Mass Spectrometry.- Mass Spectrometry Methods for Studying Glycosylation in Cancer.- Proteomics Data Exchange and Storage: The Need for Common Standards and Public Repositories.- Tools for Protein Post Translational Modifications Analysis: FAK, A Case Study.- Proteomic Strategies to Characterize Signaling Pathways.- Simple Proteomics Data Analysis in the Object-Oriented PowerShell.