Session 1 - Introduction to Skyline
Day 1 - Monday, Oct 10, 2022
9 am - 5 pm pm (All times EST)
- Introduction to targeted proteomics in Skyline
- The Skyline software ecosystem
- Targeted MS/MS (PRM) with peptides
- Absolute quantification and calibration curves for peptides
Day 2 - Tuesday, Oct 11, 2022
9am - 5:00 pm (All times EST)
- Grouped study data processing
- Intro to small molecule research in Skyline
- Small molecule targets
- Small molecule quantification
Session 2 - Advanced Small Molecules Topics
Day 1 - Thursday, Oct 13, 2022
9:00 am - 5:00 pm (All times EST)
- Skyline for small molecules
- Method transfer and quantification
- System suitability for small molecules
- Advanced small molecule quantification (multiplexed panels)
- Analysis of high resolution metabolomics data
Day 2 - Friday, Oct 14, 2022
9:00 am - 5:00 pm (All times EST)
- Ion mobility in proteomics and metabolomics (iRT)
- Analysis of lipidomics data in Skyline
- Isotope incorporation / flux analysis in Skyline
- Gas chromatography-mass spectrometry analysis
- The future of small molecule analysis in Skyline
Session 3 - Introduction to Skyline
Day 1 - Monday, Oct 17, 2022
9am - 5:00 pm (All times EST)
- Introduction to targeted proteomics in Skyline
- The Skyline ecosystem
- Targeted MS/MS (PRM)
- Small molecule method transfer and quantification
- Absolute quantification and calibration curves
Day 2 - Tuesday, Oct 18, 2022
9am - 5:00 pm (All times EST)
- Manual data analysis
- Using indexed retention time (iRT)
- Grouped study data processing in Skyline
- Using Panorama and AutoQC
Session 4 - Advanced Proteomics Topics
Day 1 - Thursday, Oct 20, 2022
9am - 5:00 pm (All times EST)
- Introduction to data independent acquisition (DIA)
- Analysis of DIA data in Skyline
- DIA instrument setup
- Generating DIA-only libraries with EncyclopeDIA
- IMS filtering for DDA and DIA quantitation
Day 2 - Friday, Oct 21, 2022
9am - 5:00 pm (All times EST)
- Introduction to post transitional modifiers (PTMs)
- Carbonyl PTM walkthrough
- Skyline tips and tricks for PTM quantification
- Advanced process control for big data
- Open searching and DIA