Monday: Introduction to Translational Mass Spectrometry and Skyline 

• Welcome and introduction to translational mass spectrometry
• Introduction to Skyline
• Tutorial: MS1 based differential expression in Skyline
• Tutorial: Processing grouped study data in Skyline
• Basics of mass spectrometry for targeted MS

Tuesday: Targeted proteomics, MRM and PRM (Parallel Reaction Monitoring)

• Intro to targeted proteomics and quantitative analysis
• Tutorial: SRM method development and refinement
• Peptide selection for targeted proteomics
• PRM method development
• Tutorial: Working with PRM data

Wednesday: System Suitability, Standards, and Absolute Quantification

• Publishing data using Panorama
• System suitability and quality control in Skyline and AutoQC
• Standards for targeted proteomics
• Tutorial: Signal calibration and absolute quantification (peptides and proteins)
• Quantification of clinical biomarkers

Thursday: Quantification of Small Molecules Using Skyline, Ion Mobility

• Introduction to small molecule capabilities in Skyline
• Tutorial: Small molecule method development using Skyline
• Tutorial: Analysis of high resolution metabolomics data in Skyline
• Targeted analysis of ion mobility dData
• Tutorial (IMS in Skyline)

Friday: Data Independent Analysis, PTM Localization, and Targeted Discovery

• Introduction to data independent acquisition (DIA)
• Tutorial: Analysis of DIA data in Skyline
• PTM localization in Skyline
• The advent of “Targeted Discovery” using large targeted panels
• Feedback and close of meeting