PXD015360-1

PXD015360 is an original dataset announced via ProteomeXchange.

Title	Comparative glycoproteomic profiling of human body fluid between healthy controls and patients with papillary thyroid carcinoma
Description	Papillary thyroid carcinoma (PTC) is the most common type of thyroid cancer among women worldwide. It is confirmed mainly by fine-needle aspiration biopsy (FNAB), an invasive diagnostic method. The key proteins responsible for thyroid hormone biosynthesis are glycosylated. Changes in site-specific glycosylation are associated with thyroid cancer. Integrated quantitative proteomic and glycoproteomic analyses of body fluids from patients with PTC may identify potential noninvasive biomarkers, improve diagnostic accuracy, and elucidate the basic mechanisms of tumor development. In the present study, we demonstrated a novel integrated method of body fluid proteome and glycoproteome analysis. We showed that it is highly reproducible and fast. It may also quantitatively profile protein glycosylation. Intact N-glycopeptides from the urine and plasma of healthy controls (HC), PTC, and PTC with Hashimoto’s thyroiditis (PHT) were enriched by hydrophilic interaction liquid chromatography. Sialic acid was removed from the N-glycopeptides with trifluoroacetic acid and heat. The desialo-N-glycopeptides were analyzed by HCD-MS/MS using stepped collision energies and several search engines for quantitative profiling. Ninety-two altered proteins and 134 intact N-glycopeptides were isolated from the plasma and urine samples of the three groups (90 samples from 15 subjects). To the best of our knowledge, this study is the first to compare the plasma and urinary proteomes and glycoproteomes of HC, PTC, and PHT. Moreover, we revealed a novel indicator (ratio of fucosylated to non-fucosylated N-glycopeptide or F/NF) through desialo-N-glycopeptide analysis. These differently expressed glycoproteins and F/NF may serve as biomarkers contributing to clinical cancer diagnostics and could be used to improve diagnostic accuracy noninvasively.
HostingRepository	PRIDE
AnnounceDate	2019-12-09
AnnouncementXML	Submission_2019-12-09_01:50:03.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Yong Zhang
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	iodoacetamide derivatized residue; deamidated residue
Instrument	Orbitrap Fusion Lumos

Revision	Datetime	Status	ChangeLog Entry
0	2019-09-09 02:51:01	ID requested
⏵ 1	2019-12-09 01:50:04	announced
2	2024-10-22 04:58:29	announced	2024-10-22: Updated project metadata.

Zhang Y, Zhao W, Zhao Y, Mao Y, Su T, Zhong Y, Wang S, Zhai R, Cheng J, Fang X, Zhu J, Yang H, Comparative Glycoproteomic Profiling of Human Body Fluid between Healthy Controls and Patients with Papillary Thyroid Carcinoma. J Proteome Res, 19(7):2539-2552(2020) [pubmed]

submitter keyword: biomarker

mass spectrometry

site-specific N-glycopeptide

thyroid cancer

Yong Zhang
contact affiliation	Sichuan University, Westchina Hospital
contact email	nankai1989@foxmail.com
lab head
Yong Zhang
contact affiliation	Sichuan University
contact email	nankai1989@foxmail.com
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD015360
     1. Label: PRIDE project
     2. Name: Comparative glycoproteomic profiling of human body fluid between healthy controls and patients with papillary thyroid carcinoma