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Single cell RNA sequencing of human liver reveals distinct intrahepatic macrophage populations

Author

Listed:
  • Sonya A. MacParland

    (Toronto General Hospital Research Institute
    University of Toronto
    University of Toronto)

  • Jeff C. Liu

    (University of Toronto)

  • Xue-Zhong Ma

    (Toronto General Hospital Research Institute)

  • Brendan T. Innes

    (University of Toronto
    University of Toronto)

  • Agata M. Bartczak

    (Toronto General Hospital Research Institute)

  • Blair K. Gage

    (University Health Network)

  • Justin Manuel

    (Toronto General Hospital Research Institute)

  • Nicholas Khuu

    (University Health Network)

  • Juan Echeverri

    (Toronto General Hospital Research Institute)

  • Ivan Linares

    (Toronto General Hospital Research Institute)

  • Rahul Gupta

    (Toronto General Hospital Research Institute)

  • Michael L. Cheng

    (University of Toronto)

  • Lewis Y. Liu

    (University of Toronto)

  • Damra Camat

    (Toronto General Hospital Research Institute)

  • Sai W. Chung

    (University of Toronto)

  • Rebecca K. Seliga

    (Toronto General Hospital Research Institute)

  • Zigong Shao

    (Toronto General Hospital Research Institute)

  • Elizabeth Lee

    (Toronto General Hospital Research Institute)

  • Shinichiro Ogawa

    (University Health Network)

  • Mina Ogawa

    (University Health Network)

  • Michael D. Wilson

    (University of Toronto
    Hospital for Sick Children)

  • Jason E. Fish

    (University of Toronto
    Toronto General Hospital Research Institute)

  • Markus Selzner

    (Toronto General Hospital Research Institute)

  • Anand Ghanekar

    (Toronto General Hospital Research Institute)

  • David Grant

    (Toronto General Hospital Research Institute)

  • Paul Greig

    (Toronto General Hospital Research Institute)

  • Gonzalo Sapisochin

    (Toronto General Hospital Research Institute)

  • Nazia Selzner

    (Toronto General Hospital Research Institute)

  • Neil Winegarden

    (University Health Network)

  • Oyedele Adeyi

    (Toronto General Hospital Research Institute
    University of Toronto
    University Health Network, Toronto)

  • Gordon Keller

    (University Health Network
    University Health Network, Toronto
    University of Toronto)

  • Gary D. Bader

    (University of Toronto
    University of Toronto)

  • Ian D. McGilvray

    (Toronto General Hospital Research Institute)

Abstract

The liver is the largest solid organ in the body and is critical for metabolic and immune functions. However, little is known about the cells that make up the human liver and its immune microenvironment. Here we report a map of the cellular landscape of the human liver using single-cell RNA sequencing. We provide the transcriptional profiles of 8444 parenchymal and non-parenchymal cells obtained from the fractionation of fresh hepatic tissue from five human livers. Using gene expression patterns, flow cytometry, and immunohistochemical examinations, we identify 20 discrete cell populations of hepatocytes, endothelial cells, cholangiocytes, hepatic stellate cells, B cells, conventional and non-conventional T cells, NK-like cells, and distinct intrahepatic monocyte/macrophage populations. Together, our study presents a comprehensive view of the human liver at single-cell resolution that outlines the characteristics of resident cells in the liver, and in particular provides a map of the human hepatic immune microenvironment.

Suggested Citation

  • Sonya A. MacParland & Jeff C. Liu & Xue-Zhong Ma & Brendan T. Innes & Agata M. Bartczak & Blair K. Gage & Justin Manuel & Nicholas Khuu & Juan Echeverri & Ivan Linares & Rahul Gupta & Michael L. Cheng, 2018. "Single cell RNA sequencing of human liver reveals distinct intrahepatic macrophage populations," Nature Communications, Nature, vol. 9(1), pages 1-21, December.
    • Handle: RePEc:nat:natcom:v:9:y:2018:i:1:d:10.1038_s41467-018-06318-7
    DOI: 10.1038/s41467-018-06318-7
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