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PXD040742 is an original dataset announced via ProteomeXchange.

Dataset Summary
TitleProteogenomic analysis of chemo-refractory high grade serous ovarian cancer
DescriptionTo improve our understanding of the molecular basis of chemo-refractory high grade serous ovarian cancers (HGSOCs), we characterized the proteogenomic landscape of 242 (refractory and sensitive) HGSOCs, representing one discovery and two independent validation cohorts (spanning four academic centers) and utilizing two biospecimen types (formalin-fixed paraffin-embedded and frozen tumor biopsies). As the largest and most comprehensive study of refractory ovarian cancers to date, this effort identified a 64-protein signature that predicts a subset of HGSOCs refractory to initial platinum-based therapy with high specificity and is validated in two independent patient cohorts. We also detected significant association between lack of Ch17 loss-of-heterozygosity and refractory disease. Moreover, based on protein pathway expression, five novel clusters of HGSOC were identified and validated across two independent patient cohorts, as well as in patient-derived xenograft (PDX) models. These clusters may represent different mechanisms of refractoriness and implicate putative therapeutic targets.
ReviewLevelPeer-reviewed dataset
DatasetOriginOriginal dataset
RepositorySupportsupported by repository but incomplete data and/or metadata
PrimarySubmitterJacob Kennedy
SpeciesList scientific name: Homo sapiens; NCBI TaxID: 9606;
ModificationListCarbamidomethyl; Label:13C(6)15N(2); Label:13C(6)15N(4)
InstrumentQTRAP 6500
Dataset History
RevisionDatetimeStatusChangeLog Entry
02023-03-09 17:56:15ID requested
12023-09-18 21:49:40announced
Publication List
Chowdhury S, Kennedy JJ, Ivey RG, Murillo OD, Hosseini N, Song X, Petralia F, Calinawan A, Savage SR, Berry AB, Reva B, Ozbek U, Krek A, Ma W, da Veiga Leprevost F, Ji J, Yoo S, Lin C, Voytovich UJ, Huang Y, Lee SH, Bergan L, Lorentzen TD, Mesri M, Rodriguez H, Hoofnagle AN, Herbert ZT, Nesvizhskii AI, Zhang B, Whiteaker JR, Fenyo D, McKerrow W, Wang J, Sch, ΓΌ, rer SC, Stathias V, Chen XS, Barcellos-Hoff MH, Starr TK, Winterhoff BJ, Nelson AC, Mok SC, Kaufmann SH, Drescher C, Cieslik M, Wang P, Birrer MJ, Paulovich AG, Proteogenomic analysis of chemo-refractory high-grade serous ovarian cancer. Cell, 186(16):3476-3498.e35(2023) [pubmed]
Keyword List
submitter keyword: Human, FFPE, HGSOC, MRM
Contact List
Jeff Whiteaker
contact affiliationFred Hutchinson Cancer Center
contact emailjwhiteak@fhcrc.org
lab head
Jacob Kennedy
contact affiliationFred Hutchinson Cancer Center
contact emailjkennedy@fhcrc.org
dataset submitter
Full Dataset Link List
Panorama Public dataset URI