Skyline: An Unanticipated Journey in Creating a Community Software Solution for Quantitative Proteomics
Michael MacCoss
Wednesday, July 24, 2013
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Chapters
Introduction
Shotgun Proteomics
These Mixtures are Complicated
It is like...
Differential Peptide Maps by Mass Spectrometry
Challenges
Would it be better to take a targeted approach?
Dilution of the Yeast Protein PGI1 in Undepleted Human Plasma
12 Attomoles of ILFDYSK on Column in 10 µg of Unfractionated Human Plasma
The Challenge
P3 Predictor
Two Miracles had to Occur
Who said there was no such thing as miracles?
Skyline: Software for the Development of Targeted Proteomics Methods and Analysis of the Data
Over 19,215 Skyline Installations
Skyline Use
Skyline is Vender Neutral
So What is the result of our collaboration with Agilent?
External Tools
External Web Site
External Tools
SkylineRunner Command-Line Interface
Support for DIA Method Generation and Analysis on Agilent Q-TOFs
Data Independent Acquisition(DIA)
Agilent DIA Data (Product Ions)
Agilent All-Ions DIA
Precursor Selectivity
Improving Precursor Selectivity
Overlapped Isolation Windows
Improved Quantitation
Acknowledgement
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