MassIVE MSV000089014

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High-field asymmetric waveform ion mobility spectrometry interface enhances parallel reaction monitoring on an Orbitrap mass spectrometer

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Description

High-field asymmetric waveform ion mobility spectrometry (FAIMS) enables gas phase separations on a chromatographic timescale and has become a useful tool for proteomic applications. Despite its emerg-ing utility, however, the molecular determinants underlying peptide separation by FAIMS have not been systematically investigated. Here, we characterize peptide transmission in a FAIMS device across a broad range of compensation voltages (CV) and used machine learning to identify charge state and 3D electrostatic peptide potential as major contributors to peptide intensity at a given CV. We also demon-strate that the machine learning model can be used to predict optimized CV values for peptides which significantly improves parallel reaction monitoring workflows. Together these data provide insight into peptide separation by FAIMS and highlight its utility in targeted proteomic applications. [doi:10.25345/C59K45W69] [dataset license: CC0 1.0 Universal (CC0 1.0)]

Keywords: FAIMS ; PRM ; Machine learning

Contact

Principal Investigators:
(in alphabetical order) 		James Wohlschlegel, UCLA, United States
Submitting User: weixiandeng

Publications

Deng W, Sha J, Xue F, Jami-Alahmadi Y, Plath K, Wohlschlegel J.
High-Field Asymmetric Waveform Ion Mobility Spectrometry Interface Enhances Parallel Reaction Monitoring on an Orbitrap Mass Spectrometer.
Anal Chem. 2022 Nov 22;94(46):15939-15947. Epub 2022 Nov 8.

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Number of distinct peptide sequences (including modified variants or peptidoforms) reported across all analyses (original submission and reanalyses) associated with this dataset.

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Total number of peptide-spectrum matches (i.e. spectrum identifications) reported across all analyses (original submission and reanalyses) associated with this dataset.

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Number of distinct proteins found to be differentially abundant in at least one comparison across all analyses (original submission and reanalyses) associated with this dataset.

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Distinct protein accessions are counted across all files submitted in the "Statistical Analysis of Quantified Analytes" category having a "Protein" column in this dataset.

"N/A" means no results of this type were submitted.
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