Get hands-on experience running a peptide-spectrum search directly on a data independent acquisition (DIA) dataset, from a SCIEX TripleTOF instrument, using a 3-organism mix data set created for instruction, based on the Navarro, Nature Biotech 2016 benchmarking paper. Use the Run Peptide Search wizard for DIA to run the DIA-Umpire spectrum deconvolution algorithm and then use a traditional spectrum search algorithm to detect peptides in the spectra. Assess the data quality using a rich collection of Skyline summary plots including Retention Times, Peak Areas, Mass Accuracy, and CVs.(26 pages)

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* - written on v22.2, updated for v24.1

On June 5th, 2022, Florence Roux-Dalvai spoke at the 2022 Skyline User Group Meeting at ASMS Comparative analysis of library-based and library-free DIA strategies using Skyline software
[presentation]