PXD007572

PXD007572 is an original dataset announced via ProteomeXchange.

Title	A pipeline for discovery and verification of glycoproteins from plasma-derived extracellular vesicles as breast cancer biomarkers
Description	Glycoproteins comprise more than half of current FDA-approved protein cancer markers but the development of new glycoproteins as disease biomarkers has been stagnant. Here we present a pipeline to develop glycoproteins from extracellular vesicles (EVs) through integrating quantitative glycoproteomics with a novel reverse phase glycoprotein array, and then apply it to identify novel biomarkers of breast cancer. EV glycoproteomics show promise in circumventing the problems plaguing current serum glycoproteomics and allowed us to identify hundreds of glycoproteins that have not been identified in serum. We identified 1,453 unique glycopeptides representing 556 glycoproteins in EVs, among which 20 are significantly higher in breast cancer patients. We further applied a novel glyco-specific reverse phase protein array to quantify a subset of the candidates. Together, this study demonstrates the great potential of this integrated pipeline for biomarker discovery.
HostingRepository	PRIDE
AnnounceDate	2018-04-26
AnnouncementXML	Submission_2018-04-26_02:29:08.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	I-Hsuan Chen
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	deamidated residue
Instrument	LTQ Orbitrap Velos

Revision	Datetime	Status	ChangeLog Entry
0	2017-08-28 07:27:23	ID requested
⏵ 1	2018-04-26 02:29:10	announced

Chen IH, Aguilar HA, Paez Paez JS, Wu X, Pan L, Wendt MK, Iliuk AB, Zhang Y, Tao WA, Analytical Pipeline for Discovery and Verification of Glycoproteins from Plasma-Derived Extracellular Vesicles as Breast Cancer Biomarkers. Anal Chem, 90(10):6307-6313(2018) [pubmed]

curator keyword: Biomedical

submitter keyword: extracellular vesicles, glycoproteomics, biomarker

W. Andy Tao
contact affiliation	Department of biochemistry, Purdue University
contact email	taow@purdue.edu
lab head
I-Hsuan Chen
contact affiliation	Purdue University
contact email	chen1329@purdue.edu
dataset submitter

Dataset FTP location NOTE: Most web browsers have now discontinued native support for FTP access within the browser window. But you can usually install another FTP app (we recommend FileZilla) and configure your browser to launch the external application when you click on this FTP link. Or otherwise, launch an app that supports FTP (like FileZilla) and use this address: ftp://ftp.pride.ebi.ac.uk/pride/data/archive/2018/04/PXD007572

PRIDE project URI

• PRIDE
  1. PXD007572
     1. Label: PRIDE project
     2. Name: A pipeline for discovery and verification of glycoproteins from plasma-derived extracellular vesicles as breast cancer biomarkers