PXD032299

PXD032299 is an original dataset announced via ProteomeXchange.

Title	Discovery and validation of serum glycoprotein biomarker panel for detection of high grade serous ovarian cancer
Description	We aimed to discover and validate a panel of serum biomarkers for high grade serous ovarian cancer (HGSOC) using our lectin-magnetic bead array-coupled proteomics platform. Serum from age-matched women with HGSOC, benign tumours or healthy controls were analysed in discovery (UKCTOCS, n=30 and UKOPS, n=30) and validation (Australian Ovarian Cancer Study, n=95) cohorts using shotgun and targeted proteomics, respectively. A 7-lectin discovery screen shortlisted 60 candidate proteins and 3 lectins for validation, which revealed elevated levels of AAL, SNA or STL-binding FIBB, CO9, ITIH3, HPT, A1AT, AACT in HGSOC, while IBP3, A2MG, PON1, CHLE and ALS were reduced. Multimarker panels were developed using generalized regression with lasso estimation and leave-one-out cross-validation. The best performing panel comprised of 13 peptides from Solanum Tuberosum lectin (STL)-binding proteins with 96.3% area under the receiver operating curve, 97.7% specificity and 78.6% sensitivity for distinguishing HGSOC from benign and healthy groups. The peptides robust in cross-validations were from IBP3, KNG1, CO9, THRB, HPTR, HPT, FINC, FA10, GELS. The validated serum biomarkers show promise for early detection of HGSOC and should be further evaluated.
HostingRepository	PRIDE
AnnounceDate	2023-11-14
AnnouncementXML	Submission_2023-11-14_09:11:41.319.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Thomas Stoll
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	acetylated residue; monohydroxylated residue; iodoacetamide derivatized residue
Instrument	TripleTOF 5600

Revision	Datetime	Status	ChangeLog Entry
0	2022-03-15 03:35:13	ID requested
1	2023-10-24 13:14:27	announced
⏵ 2	2023-11-14 09:11:47	announced	2023-11-14: Updated project metadata.

Dutt M, Hartel G, Richards RS, Shah AK, Mohamed A, Apostolidou S, Gentry-Maharaj A, Hooper JD, Perrin LC, Menon U, Hill MM, Discovery and validation of serum glycoprotein biomarkers for high grade serous ovarian cancer. Proteomics Clin Appl, 17(4):e2200114(2023) [pubmed]

submitter keyword: ovarian cancer screening, STL,glycosylation, LeMBA, lectin

Michelle M. Hill
contact affiliation	QIMR Berghofer Medical Research Institute, Precision & Systems Biomedicine, Herston, Brisbane, Queensland, Australia
contact email	michelle.hill@qimrberghofer.edu.au
lab head
Thomas Stoll
contact affiliation	QIMR Berghofer Medical Research Institute 300 Herston Road, Herston QLD 4006
contact email	thomas.stoll@qimrberghofer.edu.au
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/2023/10/PXD032299

PRIDE project URI

• PRIDE
  1. PXD032299
     1. Label: PRIDE project
     2. Name: Discovery and validation of serum glycoprotein biomarker panel for detection of high grade serous ovarian cancer