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PXD038602

PXD038602 is an original dataset announced via ProteomeXchange.

Dataset Summary
TitleGlycosylation Profiling of Neoplastic Biomarker Alpha Fetoprotein Through Intact Mass Protein Analysis
DescriptionGlycosylation is an important post-translational modification (PTM) mechanism of proteins, that modulates protein function. Measurement of clinically adopted cancer protein biomarkers is commonly performed using affinity-based techniques, which often suffer from poor specificity and inability to distinguish between closely related proteoforms. Alpha fetoprotein (AFP) is a circulating cancer biomarker implicated in multiple neoplastic malignancies, including hepatocellular carcinoma (HCC). AFP glycoforms with core fucosylation structure (AFP-L3) are used clinically as a biomarker, to predict risk of developing HCC and to monitor its recurrence. Mature AFP has a single glycosylation site, while there is a high degree of structural variation in AFP-glycan modifications. Because AFP has single glycosylation site, masses of intact AFP proteoforms can be used to differentiate and identify PTM in their native states. We developed a method for intact AFP glycoform analysis that utilizes AFP-specific immune-enrichment, followed by LC-high resolution mass spectrometry (LC-HRMS) analysis to differentiate and quantitate the relative abundance of AFP glycoforms and evaluated the method’s performance.
HostingRepositoryPRIDE
AnnounceDate2023-11-14
AnnouncementXMLSubmission_2023-11-14_08:25:50.982.xml
DigitalObjectIdentifier
ReviewLevelPeer-reviewed dataset
DatasetOriginOriginal dataset
RepositorySupportUnsupported dataset by repository
PrimarySubmitterMark Kushnir
SpeciesList scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationListphosphorylated residue; complex glycosylation
Instrument6550 iFunnel Q-TOF LC/MS
Dataset History
RevisionDatetimeStatusChangeLog Entry
02022-12-07 03:33:40ID requested
12023-01-11 15:06:46announced
22023-11-14 08:25:52announced2023-11-14: Updated project metadata.
Publication List
Dunbar C, Kushnir MM, Yang YK, Glycosylation Profiling of the Neoplastic Biomarker Alpha Fetoprotein through Intact Mass Protein Analysis. J Proteome Res, 22(1):226-234(2023) [pubmed]
Keyword List
submitter keyword: intact proteins,hepatocellular carcinoma
Contact List
Yifei Yang
contact affiliationMayo Clinic
contact emailyang.yifei@mayo.edu
lab head
Mark Kushnir
contact affiliationARUP Institute for Clinical & Experimental Pathology
contact emailkushnmm@aruplab.com
dataset submitter
Full Dataset Link List
Dataset FTP location
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PRIDE project URI
Repository Record List
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