Proteomics

Dataset Information

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Comparative analyses of data independent acquisition mass spectrometric approaches: DIA, WiSIM-DIA and directDIA

ABSTRACT: With a multitude of DIA approaches developed recently, many of their features are not yet well explored. In this study we make use of a biologically relevant sample, the synaptosome, as a model to compare the spectral libraries generated by (1) DDA solely on Orbitrap (OT), (2) Orbitrap for MS1 scan and ion trap for MS/MS acquisition (IT), and (3) directDIA derived from DIA data. Next, we compared the number of spectral library features recovered, and quality of quantification, by DIA and WiSIM-DIA, and suggest future improvement.

INSTRUMENT(S): Orbitrap Fusion Lumos

ORGANISM(S): Mus Musculus (mouse)

TISSUE(S): Brain

SUBMITTER: Frank Koopmans  

LAB HEAD: Ka Wan Li

PROVIDER: PXD006934 | Pride | 2017-11-20

REPOSITORIES: Pride

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Dataset's files

Source:
Action DRS
MaxQuant.zip Other
Spectronaut_reports.zip Other
Spectronaut_spectral_libraries.zip Other
VUAm_Frac1_TopS_HCD_IT_50cmEZ_120min_01.raw Raw
VUAm_Frac1_TopS_HCD_OT_50cmEZ_120min_02.raw Raw
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Publications

Comparative Analyses of Data Independent Acquisition Mass Spectrometric Approaches: DIA, WiSIM-DIA, and Untargeted DIA.

Koopmans Frank F   Ho Jenny T C JTC   Smit August B AB   Li Ka Wan KW  

Proteomics 20180101 1

Data-independent acquisition (DIA) is an emerging technology for quantitative proteomics. Current DIA focusses on the identification and quantitation of fragment ions that are generated from multiple peptides contained in the same selection window of several to tens of m/z. An alternative approach is WiSIM-DIA, which combines conventional DIA with wide-SIM (wide selected-ion monitoring) windows to partition the precursor m/z space to produce high-quality precursor ion chromatograms. However, WiS  ...[more]

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