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A proteomic landscape of diffuse-type gastric cancer

Author

Listed:
  • Sai Ge

    (Institute of Lifeomics
    Peking University Cancer Hospital & Institute)

  • Xia Xia

    (Institute of Lifeomics)

  • Chen Ding

    (Institute of Lifeomics
    Fudan University)

  • Bei Zhen

    (Institute of Lifeomics)

  • Quan Zhou

    (Institute of Lifeomics)

  • Jinwen Feng

    (Institute of Lifeomics
    East China Normal University)

  • Jiajia Yuan

    (Institute of Lifeomics
    Peking University Cancer Hospital & Institute)

  • Rui Chen

    (Baylor College of Medicine)

  • Yumei Li

    (Baylor College of Medicine)

  • Zhongqi Ge

    (Baylor College of Medicine)

  • Jiafu Ji

    (Peking University Cancer Hospital & Institute)

  • Lianhai Zhang

    (Peking University Cancer Hospital & Institute)

  • Jiayuan Wang

    (Peking University Cancer Hospital & Institute)

  • Zhongwu Li

    (Peking University Cancer Hospital & Institute)

  • Yumei Lai

    (Peking University Cancer Hospital & Institute)

  • Ying Hu

    (Peking University Cancer Hospital & Institute)

  • Yanyan Li

    (Peking University Cancer Hospital & Institute)

  • Yilin Li

    (Peking University Cancer Hospital & Institute)

  • Jing Gao

    (Peking University Cancer Hospital & Institute)

  • Lin Chen

    (General Hospital of Chinese People’s Liberation Army)

  • Jianming Xu

    (Affiliated Hospital of Academy of Military Medical Sciences)

  • Chunchao Zhang

    (Baylor College of Medicine)

  • Sung Yun Jung

    (Baylor College of Medicine)

  • Jong Min Choi

    (Baylor College of Medicine)

  • Antrix Jain

    (Baylor College of Medicine)

  • Mingwei Liu

    (Institute of Lifeomics)

  • Lei Song

    (Institute of Lifeomics)

  • Wanlin Liu

    (Institute of Lifeomics)

  • Gaigai Guo

    (Institute of Lifeomics)

  • Tongqing Gong

    (Institute of Lifeomics)

  • Yin Huang

    (Institute of Lifeomics)

  • Yang Qiu

    (Institute of Lifeomics)

  • Wenwen Huang

    (Institute of Lifeomics
    Peking University Cancer Hospital & Institute)

  • Tieliu Shi

    (East China Normal University)

  • Weimin Zhu

    (Institute of Lifeomics)

  • Yi Wang

    (Institute of Lifeomics
    Baylor College of Medicine)

  • Fuchu He

    (Institute of Lifeomics
    Fudan University)

  • Lin Shen

    (Institute of Lifeomics
    Peking University Cancer Hospital & Institute)

  • Jun Qin

    (Institute of Lifeomics
    Fudan University
    Baylor College of Medicine)

Abstract

The diffuse-type gastric cancer (DGC) is a subtype of gastric cancer with the worst prognosis and few treatment options. Here we present a dataset from 84 DGC patients, composed of a proteome of 11,340 gene products and mutation information of 274 cancer driver genes covering paired tumor and nearby tissue. DGC can be classified into three subtypes (PX1–3) based on the altered proteome alone. PX1 and PX2 exhibit dysregulation in the cell cycle and PX2 features an additional EMT process; PX3 is enriched in immune response proteins, has the worst survival, and is insensitive to chemotherapy. Data analysis revealed four major vulnerabilities in DGC that may be targeted for treatment, and allowed the nomination of potential immunotherapy targets for DGC patients, particularly for those in PX3. This dataset provides a rich resource for information and knowledge mining toward altered signaling pathways in DGC and demonstrates the benefit of proteomic analysis in cancer molecular subtyping.

Suggested Citation

  • Sai Ge & Xia Xia & Chen Ding & Bei Zhen & Quan Zhou & Jinwen Feng & Jiajia Yuan & Rui Chen & Yumei Li & Zhongqi Ge & Jiafu Ji & Lianhai Zhang & Jiayuan Wang & Zhongwu Li & Yumei Lai & Ying Hu & Yanyan, 2018. "A proteomic landscape of diffuse-type gastric cancer," Nature Communications, Nature, vol. 9(1), pages 1-16, December.
    • Handle: RePEc:nat:natcom:v:9:y:2018:i:1:d:10.1038_s41467-018-03121-2
    DOI: 10.1038/s41467-018-03121-2
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    Cited by:

    1. Zhenmei Yao & Ning Xu & Guoguo Shang & Haixing Wang & Hui Tao & Yunzhi Wang & Zhaoyu Qin & Subei Tan & Jinwen Feng & Jiajun Zhu & Fahan Ma & Sha Tian & Qiao Zhang & Yuanyuan Qu & Jun Hou & Jianming Gu, 2023. "Proteogenomics of different urothelial bladder cancer stages reveals distinct molecular features for papillary cancer and carcinoma in situ," Nature Communications, Nature, vol. 14(1), pages 1-25, December.
    2. Yan Li & Bing Wang & Wentao Yang & Fahan Ma & Jianling Zou & Kai Li & Subei Tan & Jinwen Feng & Yunzhi Wang & Zhaoyu Qin & Zhiyu Chen & Chen Ding, 2024. "Longitudinal plasma proteome profiling reveals the diversity of biomarkers for diagnosis and cetuximab therapy response of colorectal cancer," Nature Communications, Nature, vol. 15(1), pages 1-23, December.
    3. Lingling Li & Dongxian Jiang & Qiao Zhang & Hui Liu & Fujiang Xu & Chunmei Guo & Zhaoyu Qin & Haixing Wang & Jinwen Feng & Yang Liu & Weijie Chen & Xue Zhang & Lin Bai & Sha Tian & Subei Tan & Chen Xu, 2023. "Integrative proteogenomic characterization of early esophageal cancer," Nature Communications, Nature, vol. 14(1), pages 1-28, December.
    4. Lingling Li & Dongxian Jiang & Hui Liu & Chunmei Guo & Rui Zhao & Qiao Zhang & Chen Xu & Zhaoyu Qin & Jinwen Feng & Yang Liu & Haixing Wang & Weijie Chen & Xue Zhang & Bin Li & Lin Bai & Sha Tian & Su, 2023. "Comprehensive proteogenomic characterization of early duodenal cancer reveals the carcinogenesis tracks of different subtypes," Nature Communications, Nature, vol. 14(1), pages 1-24, December.
    5. Yan Li & Chen Xu & Bing Wang & Fujiang Xu & Fahan Ma & Yuanyuan Qu & Dongxian Jiang & Kai Li & Jinwen Feng & Sha Tian & Xiaohui Wu & Yunzhi Wang & Yang Liu & Zhaoyu Qin & Yalan Liu & Jing Qin & Qi Son, 2022. "Proteomic characterization of gastric cancer response to chemotherapy and targeted therapy reveals potential therapeutic strategies," Nature Communications, Nature, vol. 13(1), pages 1-26, December.
    6. Wenhao Shi & Yushen Wang & Chen Xu & Yan Li & Sai Ge & Bin Bai & Kecheng Zhang & Yunzhi Wang & Nairen Zheng & Juan Wang & Shiqi Wang & Gang Ji & Jipeng Li & Yongzhan Nie & Wenquan Liang & Xiaosong Wu , 2023. "Multilevel proteomic analyses reveal molecular diversity between diffuse-type and intestinal-type gastric cancer," Nature Communications, Nature, vol. 14(1), pages 1-22, December.
    7. Shengli Li & Li Yuan & Zhi-Yuan Xu & Jing-Li Xu & Gui-Ping Chen & Xiaoqing Guan & Guang-Zhao Pan & Can Hu & Jinyun Dong & Yi-An Du & Li-Tao Yang & Mao-Wei Ni & Rui-Bin Jiang & Xiu Zhu & Hang Lv & Han-, 2023. "Integrative proteomic characterization of adenocarcinoma of esophagogastric junction," Nature Communications, Nature, vol. 14(1), pages 1-19, December.

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