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PXD063749

PXD063749 is an original dataset announced via ProteomeXchange.

Dataset Summary
TitleHCC-serum-N-glycome-biomarkers-2025
DescriptionHepatocellular carcinoma (HCC) ranks among the foremost causes of cancer-related deaths globally, yet the contribution of N-glycosylation to its pathogenesis has remained elusive. In this study, we employed an innovative multicenter, large-cohort glycomics approach, integrating isomer-specific glycan profiling and multiomics data, to unravel the molecular mechanisms driving HCC and to harness serum N-glycome signatures for advanced diagnostic applications. We analyzed serum samples from 1,074 individuals—164 healthy controls, 223 with chronic hepatitis B, 218 with liver cirrhosis, and 469 with HCC—using a high-throughput, reproducible pipeline involving N-glycan release, derivatization, enrichment, and MALDI-TOF mass spectrometry. Our findings reveal striking N-glycosylation signatures tied to liver disease progression, notably increased glycan branching, and to hepatic dysfunction, evidenced by elevated bisecting N-acetylglucosamine and fucosylation with diminished galactosylation. Leveraging these serum N-glycan profiles, we developed machine learning models achieving exceptional diagnostic accuracy for HCC, with areas under the receiver operating characteristic curve (ROC-AUC) ranging from 0.84 to 0.93 in an internal validation cohort—outperforming alpha-fetoprotein (DeLong’s test, P < 0.05). Robustness of these models was confirmed through validation in two independent external cohorts, underscoring their potential as a transformative tool for HCC diagnosis. Moreover, by integrating glycoproteomic and transcriptomic analyses, we elucidated the regulatory and functional pathways orchestrating these glycan shifts.
HostingRepositoryiProX
AnnounceDate2025-05-07
AnnouncementXMLSubmission_2025-05-07_19:00:16.149.xml
DigitalObjectIdentifier
ReviewLevelPeer-reviewed dataset
DatasetOriginOriginal dataset
RepositorySupportUnsupported dataset by repository
PrimarySubmitterBin Fu
SpeciesList scientific name: Homo sapiens; NCBI TaxID: 9606;
ModificationListNo PTMs are included in the dataset
InstrumentOrbitrap Fusion
Dataset History
RevisionDatetimeStatusChangeLog Entry
02025-05-07 18:59:45ID requested
12025-05-07 19:00:16announced
Publication List
Dataset with its publication pending
Keyword List
submitter keyword: N-glycan, HCC, biomarker, machine learning
Contact List
Haojie Lu
contact affiliationFudan University
contact emailluhaojie@fudan.edu.cn
lab head
Bin Fu
contact affiliationFudan University
contact email23110220018@m.fudan.edu.cn
dataset submitter
Full Dataset Link List
iProX dataset URI