PXD047551

PXD047551 is an original dataset announced via ProteomeXchange.

Title	Proteome profiling of ovarian clear cell carcinomas for the prognostic markers of the recurrence of the platinum therapy
Description	Clear cell ovarian carcinoma (CCOC) is a relatively rare subtype of ovarian cancer (OC) with high degree of resistance to standard chemotherapy. Little is known about the underlying molecular mechanisms, and it remains a challenge to predict its prognosis after chemotherapy. Here, we first analyzed the proteome of 35 formalin‐fixed paraffin‐embedded (FFPE) CCOC tissue specimens from a cohort of 32 patients with CCOC (H1 cohort) and characterized 8697 proteins using data‐independent acquisition mass spectrometry (DIA‐MS). We then performed proteomic analysis of 28 fresh frozen (FF) CCOC tissue specimens from an independent cohort of 24 patients with CCOC (H2 cohort), leading to the identification of 9409 proteins with DIA‐MS. After bioinformatics analysis, we narrowed our focus to 15 proteins significantly correlated with the recurrence free survival (RFS) in both cohorts. These proteins are mainly involved in DNA damage response, extracellular matrix (ECM), and mitochondrial metabolism. Paralleled reaction monitoring (PRM)‐MS was adopted to validate the prognostic potential of the 15 proteins in the H1 cohort and an independent confirmation cohort (H3 cohort). Interferon‐inducible transmembrane protein 1 (IFITM1) was observed as a robust prognostic marker for CCOC in both PRM data and immunohistochemistry (IHC) data. Taken together, this study presents a CCOC proteomic data resource and a single promising protein, IFITM1, which could potentially predict the recurrence and survival of CCOC.
HostingRepository	iProX
AnnounceDate	2023-12-05
AnnouncementXML	Submission_2023-12-10_20:47:53.909.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Tiannan Guo
SpeciesList	scientific name: Homo sapiens; NCBI TaxID: 9606;
ModificationList	No PTMs are included in the dataset
Instrument	Q Exactive HF

Revision	Datetime	Status	ChangeLog Entry
0	2023-12-05 18:47:05	ID requested
⏵ 1	2023-12-10 20:47:54	announced

Dataset with its publication pending

submitter keyword: proteomics, ovarian clear cell carcinoma, platinum resistance, prognosic model, DIA, recurrence free survival, Cox regression, extracellular Matrix, DNA repire

Tiannan Guo
contact affiliation	Westlake University
contact email	Tiannan.guo@hotmail.com
lab head
Tiannan Guo
contact affiliation	Westlake University
contact email	Tiannan.guo@hotmail.com
dataset submitter

iProX dataset URI