PXD038673 is an
original dataset announced via ProteomeXchange.
Dataset Summary
Title | IMPROVED N- AND O-GLYCOPEPTIDE IDENTIFICATION USING HIGH-FIELD ASYMMETRIC WAVEFORM ION MOBILITY SPECTROMETRY (FAIMS) |
Description | Mass spectrometry is the premier tool for identifying and quantifying site-specific protein glycosylation globally. Analysis of intact glycopeptides often requires an enrichment step, after which the samples remain highly complex and exhibit a broad dynamic range of abundance. Here, we evaluated the analytical benefits of high-field asymmetric waveform ion mobility spectrometry (FAIMS) coupled to nano-liquid chromatography mass spectrometry (nLC-MS) for analyses of intact glycopeptide devoid of any enrichment step. We compared the effects of compensation voltage on the transmission of N- and O-glycopeptides derived from heterogeneous protein mixtures using two FAIMS devices. We comprehensively demonstrate the performance characteristics of the FAIMS device for glycopeptide analysis and recommend optimal electrode temperature and compensation voltage (CV) settings for N- and O-glycopeptide analysis. Under optimal CV settings, FAIMS-assisted gas-phase fractionation in conjunction with chromatographic reverse phase separation resulted in a 31% increase in the detection of both N- and O-glycopeptide compared to control experiments without FAIMS. Overall, our results demonstrate that FAIMS provides an alternative means to access glycopeptides without any enrichment providing an unbiased global glycoproteome landscape. In addition, our work provides the framework to verify ‘difficult-to-identify’ glycopeptide features. |
HostingRepository | PRIDE |
AnnounceDate | 2023-11-14 |
AnnouncementXML | Submission_2023-11-14_09:08:34.605.xml |
DigitalObjectIdentifier | |
ReviewLevel | Peer-reviewed dataset |
DatasetOrigin | Original dataset |
RepositorySupport | Unsupported dataset by repository |
PrimarySubmitter | Kathirvel Alagesan |
SpeciesList | scientific name: Homo sapiens (Human); NCBI TaxID: 9606; |
ModificationList | iodoacetamide derivatized residue |
Instrument | Orbitrap Fusion Lumos; Orbitrap Exploris 480 |
Dataset History
Revision | Datetime | Status | ChangeLog Entry |
0 | 2022-12-07 12:58:25 | ID requested | |
1 | 2023-10-24 11:59:52 | announced | |
⏵ 2 | 2023-11-14 09:08:43 | announced | 2023-11-14: Updated project metadata. |
Publication List
Rangel-Angarita V, Mahoney KE, Kwon C, Sarker R, Lucas TM, Malaker SA, False-Positive Glycopeptide Identification via In-FAIMS Fragmentation. JACS Au, 3(9):2498-2509(2023) [pubmed] |
Keyword List
submitter keyword: FAIMS, N-GLYCOPEPTIDES, MASS SPECTROMETRY, O-GLYCOPEPTIDES,GLYCOPROTEOMICS |
Contact List
Kathirvel Alagesan |
contact affiliation | Max Planck Unit for the Science of Pathogens, Charitéplatz 1, Berlin 10117, Germany |
contact email | alagesan@mpusp.mpg.de |
lab head | |
Kathirvel Alagesan |
contact affiliation | Max Planck Unit for the Science of Pathogens |
contact email | alagesan@mpusp.mpg.de |
dataset submitter | |
Full Dataset Link List
Dataset FTP location
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PRIDE project URI |
Repository Record List
[ + ]
[ - ]
- PRIDE
- PXD038673
- Label: PRIDE project
- Name: IMPROVED N- AND O-GLYCOPEPTIDE IDENTIFICATION USING HIGH-FIELD ASYMMETRIC WAVEFORM ION MOBILITY SPECTROMETRY (FAIMS)