PXD016406-1

PXD016406 is an original dataset announced via ProteomeXchange.

Title	Intact N-glycopeptides and proteomics from HCC tissue tumors with low and high AFP concentrations
Description	Hepatocellular carcinoma (HCC) is still one of the malignant tumors with high morbidity and mortality in China and worldwide. Although AFP have been widely used as important biomarkers for HCC diagnosis and evaluation, the AFP level has a huge variation among HCC patient populations. Understanding the intrinsic heterogeneities of HCC associated with AFP levels is essential for the molecular mechanism studies of HCC with different AFP levels as well as for the potential early diagnosis and personalized treatment of HCC with AFP negative. Here, an integrated glycoproteomic and proteomic analysis of low and high AFP level of HCC tumors was performed to investigate the intrinsic heterogeneities of site-specific glycosylation associated with different AFP levels of HCC. we identified many commonly altered site-specific glycans from HCC tumors regardless of AFP levels, including decreased modifications by oligo-mannose and sialylated bi-antennary glycans, and increased modifications by bisecting glycans. By relative quantifying the intact glycopeptides between low and high AFP tumor groups, the great heterogeneities of site-specific N-glycans between two groups of HCC tumors were also uncovered. We found that several sialylated but not core fucosylated tri-antennary glycans were uniquely high-regulated in low AFP level of HCC tumors, while many core fucosylated bi-antennary or hybrid glycans as well as bisecting glycans were uniquely increased in high AFP tumors. The data provide a valuable resource for future HCC studies regarding the mechanism, heterogeneities and new biomarker discovery.
HostingRepository	PRIDE
AnnounceDate	2020-03-19
AnnouncementXML	Submission_2020-03-19_07:23:42.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Ting Zhao
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	TMT6plex-126 reporter+balance reagent acylated residue; carbamoylated residue; monohydroxylated residue; acetylated residue
Instrument	Orbitrap Fusion Lumos

Revision	Datetime	Status	ChangeLog Entry
0	2019-11-22 05:24:20	ID requested
⏵ 1	2020-03-19 07:23:43	announced
2	2020-05-27 02:32:16	announced	2020-05-27: Updated publication reference for PubMed record(s): 32426269.

Dataset with its publication pending

submitter keyword: Hepatocellular carcinoma, proteomics, intact glycopeptide, mass spectrometry

Sun Lab
contact affiliation	College of Life Science, Northwest University
contact email	tingzhao912@sina.com
lab head
Ting Zhao
contact affiliation	15891774008
contact email	tingzhao912@sina.com
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD016406
     1. Label: PRIDE project
     2. Name: Intact N-glycopeptides and proteomics from HCC tissue tumors with low and high AFP concentrations