Monday: Introduction to Translational Mass Spectrometry and Skyline 

• Welcome and intro to Translational Mass Spectrometry (Arthur)
• Intro to Skyline (Brendan)
• Tutorial: MS1 based Differential Expression in Skyline (Erik)
• Tutorial: Processing grouped study data in Skyline (Brendan)
• Basics of mass spectrometry for targeted MS (Bereman)

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

• Intro to targeted proteomics and quantitative analysis (Mike)
• Tutorial: SRM method development and refinement (Brendan)
• Peptide Selection for Targeted Proteomics – (Will)
• PRM method development (Matt)
• Tutorial: Working with PRM data (Matt)

Wednesday: System Suitability, Standards, and Absolute Quantification

• Publishing data using Panorama (Brendan)
• System suitability and quality control in Skyline and AutoQC (Lisa)
• Standards for targeted proteomics (Chris Lecture)
• Tutorial: Signal calibration and absolute quantification (peptides and proteins) (Chris)
• Quantification of Clinical Biomarkers (Russell Grant)

Thursday: Quantification of Small Molecules Using Skyline, Ion Mobility

• Introduction to Small Molecule Capabilities in Skyline (Will)
• Tutorial: Small Molecule Method Development using Skyline (Will)
• Tutorial: Analysis of High Resolution Metabolomics Data in Skyline (Will)
• Targeted Analysis of Ion Mobility Data (Erin Baker)
• Tutorial (IMS in Skyline) – Brendan

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

• Introduction data independent acquisition (DIA) – Matt?
• Tutorial: Analysis of DIA data in Skyline (Matt? Brendan?)
• PTM Localization in Skyline (Erik)
• The Advent of “Targeted Discovery” using Large Targeted Panels (Erik Lecture)
• Feedback and Close of Meeting