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DIA/SWATH Course

Videos Targeted Proteomics Course 2016


Day 1: Setting up targeted MS experiments


Ben Collins - Opening remarks


Christina Ludwig - The ABC of Selected Reaction Monitoring (SRM)


Ruedi Aebersold - Biological significance of targeted proteomics experiments


Brendan MacLean - Introduction to the software Skyline


Ariel Bensimon - Setting-up targeted proteomics experiments


Day 2: Analyzing SRM/PRM data


Christina Ludwig - Quantitative targeted proteomics


Jake Jaffe - Introduction into Parallel Reaction Monitoring


Ludovic Gillet - Automated peak picking, scoring and FDR estimation


SkyJam - Brendan MacLean - Method Refinement and Effective Data Processing


Day 3: Statistics and full-scan targeting


Jake Jaffe - Computational and Analytical Methods for Getting the Most from Targeted Proteomics


Olga Vitek - Experimental study design


Ben Collins - Introduction into data-independent acquisition (DIA/SWATH)


Olga Vitek - Statistics in targeted proteomics


SkyJam - Brendan MacLean - Data analysis issues


Day 4: Targeted DIA and PTMs


Ben Collins - Assay library generation and publicly available library resources for SWATH/DIA


Isabell Bludau - Introduction to the software MSstats


Yansheng Liu - Targeted methods of data extraction in DIA (and more...)


Ariel Bensimon - Monitoring Phosphorylations by targeted proteomics


Day 5: Applications of large scale targeted proteomics


Ruedi Aebersold - Proteotype variability: Where does it come from and what does it mean?


Lukas Reiter - Targeted DIA on Orbitrap analyzers using Spectronaut


SkyJam - Brendan MacLean - Processing DDA Data with Skyline


Yansheng Liu - Biomarker research using Targeted Proteomics


Ludovic Gillet - Wrap-up

Videos Targeted Proteomics Course 2015