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Proteomic profiling of ovarian clear cell carcinomas identifies prognostic biomarkers for chemotherapy
  • +12
  • Liang Yue,
  • Tingting Gong,
  • Wenhao Jiang,
  • Liujia Qian,
  • Wanggang Gong,
  • Yaoting Sun,
  • Xue Cai,
  • Heli Xu,
  • Fanghua Liu,
  • He Wang,
  • Sainan Li,
  • Yi Zhu,
  • Zhi-guo Zheng,
  • Qijun Wu,
  • Tiannan Guo
Liang Yue
Westlake University
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Tingting Gong
Shengjing Hospital of China Medical University
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Wenhao Jiang
Westlake University
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Liujia Qian
Westlake University
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Wanggang Gong
Zhejiang Cancer Hospital
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Yaoting Sun
Westlake University
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Xue Cai
Westlake University
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Heli Xu
Shengjing Hospital of China Medical University
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Fanghua Liu
Shengjing Hospital of China Medical University
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He Wang
Westlake University
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Sainan Li
Peking University
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Yi Zhu
Westlake University
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Zhi-guo Zheng
Zhejiang Cancer Hospital
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Qijun Wu
Shengjing Hospital of China Medical University
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Tiannan Guo
Westlake University

Corresponding Author:guotiannan@westlake.edu.cn

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Abstract

CCOC s a relatively rare subtype of ovarian cancer 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. We analyzed the proteome of CCOC tissue samples from two independent cohorts using DIA-MS. A total of 8697 proteins were characterized in the first cohort (H1 cohort, 32 patients, 35 FFPE samples) and 9409 proteins in the second cohort (H2 cohort, 24 patients, 28 FF samples). After bioinformatics analysis, we narrowed our focus to 15 proteins significantly correlated with RFS in both cohorts. These proteins are mainly involved in DNA damage response, extracellular matrix, and mitochondrial metabolism. We further developed a 13-protein model to predict the prognosis of patients with CCOC in H2 cohort, and validated the model in the H1 cohort in both DIA and PRM data. Finally, we verified the modulated pathways from our CCOC proteomic dataset in several published CCOC transcriptome and proteome datasets. Taken together, this study presents a CCOC proteomic data resource and a promising 13-protein panel which could potentially predict the recurrence and survival of CCOC.
08 Jun 2023Submitted to PROTEOMICS
09 Jun 2023Submission Checks Completed
09 Jun 2023Assigned to Editor
12 Jun 2023Review(s) Completed, Editorial Evaluation Pending
12 Jun 2023Reviewer(s) Assigned
21 Aug 2023Editorial Decision: Revise Minor
08 Oct 2023Review(s) Completed, Editorial Evaluation Pending
08 Oct 20231st Revision Received
09 Oct 2023Reviewer(s) Assigned
15 Nov 2023Editorial Decision: Revise Minor
17 Nov 2023Review(s) Completed, Editorial Evaluation Pending
17 Nov 20232nd Revision Received
20 Nov 2023Editorial Decision: Accept