PXD015303

PXD015303 is an original dataset announced via ProteomeXchange.

Title	Epithelial ovarian cancer biomarker
Description	Protein biomarkers of early stages of disease are critical for managing the disease and improving outcomes. Unfortunately, discovery of protein biomarkers is hampered by the limited availability of assays for sensitive and reproducible quantification of proteins in complex biological matrices such as blood plasma. In the recent years, Selected Reaction Monitoring (SRM) has emerged as a robust mass spectrometric method, capable of overcoming this limitation. Here, we present a comprehensive SRM-based strategy for developing protein biomarkers for epithelial ovarian cancer, and illustrate the extent to which SRM platform, combined with sound experimental design and statistical analysis, results in robust detection of predictive analytes. First, the biomarker development was guided by a discovery-driven proteomic effort to detect potential N-glycoprotein biomarker candidates in tissue of a genetically stable ovarian cancer mouse model. Next, 65 candidate markers were reproducibly quantified with SRM assays across a large cohort of over 200 plasma samples from ovarian cancer patients and healthy controls. Finally, these measurements were used to derive 5-protein signatures for distinguishing individuals with epithelial ovarian cancer from healthy controls. The sensitivity of the candidate biomarker signature in combination with CA125 ELISA-based measurements currently used in clinic, exceeded that of CA125 ELISA-based measurements alone. The SRM-based strategy in this study is broadly applicable. It can be used in any study that requires accurate and reproducible quantification of selected proteins in a high-throughput and multiplexed fashion.
HostingRepository	MassIVE
AnnounceDate	2020-06-16
AnnouncementXML	Submission_2020-06-16_09:31:44.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Meena Choi
SpeciesList	scientific name: Homo sapiens; common name: human; NCBI TaxID: 9606;
ModificationList	No PTMs are included in the dataset
Instrument	4000 QTRAP; QTRAP 5500; TSQ Vantage

Revision	Datetime	Status	ChangeLog Entry
0	2019-09-03 13:01:41	ID requested
1	2019-09-03 13:05:01	announced
⏵ 2	2020-06-16 09:31:45	announced	2020-06-16: Adding publication [PMID31289117] to dataset [MSV000084048]

H, ü, ttenhain R, Choi M, Martin de la Fuente L, Oehl K, Chang CY, Zimmermann AK, Malander S, Olsson H, Surinova S, Clough T, Heinzelmann-Schwarz V, Wild PJ, Dinulescu DM, Nim, é, us E, Vitek O, Aebersold R, A Targeted Mass Spectrometry Strategy for Developing Proteomic Biomarkers: A Case Study of Epithelial Ovarian Cancer. Mol Cell Proteomics, 18(9):1836-1850(2019) [pubmed]

submitter keyword: SRM, Biomarker, Ovarian cancer

Meena Choi
contact affiliation	Northeastern University
contact email	m.choi@northeastern.edu
lab head
Ruth Huttenhain
contact affiliation	Department of Molecular and Cellular Pharmacology, UCSF
contact email	Ruth.huttenhain@ucsf.edu
lab head
Meena Choi
contact affiliation	Northeastern University
contact email	mnchoi67@gmail.com
dataset submitter

MassIVE dataset URI

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