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Dissecting esophageal squamous-cell carcinoma ecosystem by single-cell transcriptomic analysis

Author

Listed:
  • Xiannian Zhang

    (Capital Medical University)

  • Linna Peng

    (Chinese Academy of Medical Sciences and Peking Union Medical College)

  • Yingying Luo

    (Chinese Academy of Medical Sciences and Peking Union Medical College)

  • Shaosen Zhang

    (Chinese Academy of Medical Sciences and Peking Union Medical College)

  • Yang Pu

    (Chinese Academy of Medical Sciences and Peking Union Medical College)

  • Yamei Chen

    (Chinese Academy of Medical Sciences and Peking Union Medical College)

  • Wenjia Guo

    (Affiliated Cancer Hospital of Xinjiang Medical University
    Key Laboratory of Oncology of Xinjiang Uyghur Autonomous Regio)

  • Jiacheng Yao

    (Tsinghua University)

  • Mingming Shao

    (Chinese Academy of Medical Sciences and Peking Union Medical College)

  • Wenyi Fan

    (Chinese Academy of Medical Sciences and Peking Union Medical College)

  • Qionghua Cui

    (Chinese Academy of Medical Sciences and Peking Union Medical College)

  • Yiyi Xi

    (Chinese Academy of Medical Sciences and Peking Union Medical College)

  • Yanxia Sun

    (Chinese Academy of Medical Sciences and Peking Union Medical College)

  • Xiangjie Niu

    (Chinese Academy of Medical Sciences and Peking Union Medical College)

  • Xuan Zhao

    (Chinese Academy of Medical Sciences and Peking Union Medical College)

  • Liping Chen

    (Chinese Academy of Medical Sciences and Peking Union Medical College)

  • Yuqian Wang

    (Chinese Academy of Medical Sciences and Peking Union Medical College)

  • Yachen Liu

    (Chinese Academy of Medical Sciences and Peking Union Medical College)

  • Xinyu Yang

    (Chinese Academy of Medical Sciences and Peking Union Medical College)

  • Chengcheng Wang

    (Chinese Academy of Medical Sciences and Peking Union Medical College)

  • Ce Zhong

    (Chinese Academy of Medical Sciences and Peking Union Medical College)

  • Wen Tan

    (Chinese Academy of Medical Sciences and Peking Union Medical College)

  • Jianbin Wang

    (Tsinghua University)

  • Chen Wu

    (Chinese Academy of Medical Sciences and Peking Union Medical College
    Nanjing Medical University
    Chinese Academy of Medical Sciences
    Chinese Academy of Medical Sciences and Peking Union Medical College)

  • Dongxin Lin

    (Chinese Academy of Medical Sciences and Peking Union Medical College
    Nanjing Medical University
    Chinese Academy of Medical Sciences and Peking Union Medical College
    Sun Yat-sen University Cancer Center, State Key Laboratory of Oncology in South China)

Abstract

Esophageal squamous-cell carcinoma (ESCC), one of the most prevalent and lethal malignant disease, has a complex but unknown tumor ecosystem. Here, we investigate the composition of ESCC tumors based on 208,659 single-cell transcriptomes derived from 60 individuals. We identify 8 common expression programs from malignant epithelial cells and discover 42 cell types, including 26 immune cell and 16 nonimmune stromal cell subtypes in the tumor microenvironment (TME), and analyse the interactions between cancer cells and other cells and the interactions among different cell types in the TME. Moreover, we link the cancer cell transcriptomes to the somatic mutations and identify several markers significantly associated with patients’ survival, which may be relevant to precision care of ESCC patients. These results reveal the immunosuppressive status in the ESCC TME and further our understanding of ESCC.

Suggested Citation

  • Xiannian Zhang & Linna Peng & Yingying Luo & Shaosen Zhang & Yang Pu & Yamei Chen & Wenjia Guo & Jiacheng Yao & Mingming Shao & Wenyi Fan & Qionghua Cui & Yiyi Xi & Yanxia Sun & Xiangjie Niu & Xuan Zh, 2021. "Dissecting esophageal squamous-cell carcinoma ecosystem by single-cell transcriptomic analysis," Nature Communications, Nature, vol. 12(1), pages 1-17, December.
    • Handle: RePEc:nat:natcom:v:12:y:2021:i:1:d:10.1038_s41467-021-25539-x
    DOI: 10.1038/s41467-021-25539-x
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    Cited by:

    1. Guozhong Jiang & Zhizhong Wang & Zhenguo Cheng & Weiwei Wang & Shuangshuang Lu & Zifang Zhang & Chinedu A. Anene & Faraz Khan & Yue Chen & Emma Bailey & Huisha Xu & Yunshu Dong & Peinan Chen & Zhongxi, 2024. "The integrated molecular and histological analysis defines subtypes of esophageal squamous cell carcinoma," Nature Communications, Nature, vol. 15(1), pages 1-17, December.
    2. De-Chen Lin, 2023. "Large-scale genomic analyses reveal alterations and mechanisms underlying clonal evolution and immune evasion in esophageal cancer," Nature Communications, Nature, vol. 14(1), pages 1-3, December.
    3. Alexander Coulton & Jun Murai & Danwen Qian & Krupa Thakkar & Claire E. Lewis & Kevin Litchfield, 2024. "Using a pan-cancer atlas to investigate tumour associated macrophages as regulators of immunotherapy response," Nature Communications, Nature, vol. 15(1), pages 1-14, December.
    4. Haidi Huang & Yu Jiang & Jiangying Liu & Dan Luo & Jianghong Yuan & Rongzi Mu & Xiang Yu & Donglei Sun & Jihong Lin & Qiyue Chen & Xinjing Li & Ming Jiang & Jianming Xu & Bo Chu & Chengqian Yin & Lei , 2024. "Jag1/2 maintain esophageal homeostasis and suppress foregut tumorigenesis by restricting the basal progenitor cell pool," Nature Communications, Nature, vol. 15(1), pages 1-18, December.
    5. Zhenlin Yang & He Tian & Xiaowei Chen & Bozhao Li & Guangyu Bai & Qingyuan Cai & Jiachen Xu & Wei Guo & Shuaibo Wang & Yue Peng & Qing Liang & Liyan Xue & Shugeng Gao, 2024. "Single-cell sequencing reveals immune features of treatment response to neoadjuvant immunochemotherapy in esophageal squamous cell carcinoma," Nature Communications, Nature, vol. 15(1), pages 1-18, December.
    6. Xuejiao Liu & Simin Zhao & Keke Wang & Liting Zhou & Ming Jiang & Yunfeng Gao & Ran Yang & Shiwen Yan & Wen Zhang & Bingbing Lu & Feifei Liu & Ran Zhao & Wenting Liu & Zihan Zhang & Kangdong Liu & Xia, 2023. "Spatial transcriptomics analysis of esophageal squamous precancerous lesions and their progression to esophageal cancer," Nature Communications, Nature, vol. 14(1), pages 1-20, December.
    7. Yuan Jiang & Yueyuan Zheng & Yuan-Wei Zhang & Shuai Kong & Jinxiu Dong & Fei Wang & Benjamin Ziman & Sigal Gery & Jia-Jie Hao & Dan Zhou & Jianian Zhou & Allen S. Ho & Uttam K. Sinha & Jian Chen & Shu, 2024. "Reciprocal inhibition between TP63 and STAT1 regulates anti-tumor immune response through interferon-γ signaling in squamous cancer," Nature Communications, Nature, vol. 15(1), pages 1-18, December.

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