IDEAS home Printed from https://ideas.repec.org/a/nat/natcom/v8y2017i1d10.1038_ncomms15081.html
   My bibliography  Save this article

Single-cell RNA-seq enables comprehensive tumour and immune cell profiling in primary breast cancer

Author

Listed:
  • Woosung Chung

    (Samsung Genome Institute, Samsung Medical Center
    Samsung Advanced Institute for Health Sciences & Technology, Sungkyunkwan University)

  • Hye Hyeon Eum

    (Samsung Genome Institute, Samsung Medical Center
    Seoul National University Graduate School)

  • Hae-Ock Lee

    (Samsung Genome Institute, Samsung Medical Center
    Sungkyunkwan University School of Medicine)

  • Kyung-Min Lee

    (Seoul National University College of Medicine
    Biomedical Research Institute, Seoul National University Hospital)

  • Han-Byoel Lee

    (Seoul National University College of Medicine
    Seoul National University College of Medicine)

  • Kyu-Tae Kim

    (Samsung Genome Institute, Samsung Medical Center)

  • Han Suk Ryu

    (Seoul National University College of Medicine)

  • Sangmin Kim

    (Samsung Medical Center, Sungkyunkwan University School of Medicine)

  • Jeong Eon Lee

    (Samsung Medical Center, Sungkyunkwan University School of Medicine)

  • Yeon Hee Park

    (Samsung Medical Center)

  • Zhengyan Kan

    (Oncology Research, Pfizer Inc.)

  • Wonshik Han

    (Seoul National University College of Medicine
    Seoul National University College of Medicine)

  • Woong-Yang Park

    (Samsung Genome Institute, Samsung Medical Center
    Samsung Advanced Institute for Health Sciences & Technology, Sungkyunkwan University
    Sungkyunkwan University School of Medicine)

Abstract

Single-cell transcriptome profiling of tumour tissue isolates allows the characterization of heterogeneous tumour cells along with neighbouring stromal and immune cells. Here we adopt this powerful approach to breast cancer and analyse 515 cells from 11 patients. Inferred copy number variations from the single-cell RNA-seq data separate carcinoma cells from non-cancer cells. At a single-cell resolution, carcinoma cells display common signatures within the tumour as well as intratumoral heterogeneity regarding breast cancer subtype and crucial cancer-related pathways. Most of the non-cancer cells are immune cells, with three distinct clusters of T lymphocytes, B lymphocytes and macrophages. T lymphocytes and macrophages both display immunosuppressive characteristics: T cells with a regulatory or an exhausted phenotype and macrophages with an M2 phenotype. These results illustrate that the breast cancer transcriptome has a wide range of intratumoral heterogeneity, which is shaped by the tumour cells and immune cells in the surrounding microenvironment.

Suggested Citation

  • Woosung Chung & Hye Hyeon Eum & Hae-Ock Lee & Kyung-Min Lee & Han-Byoel Lee & Kyu-Tae Kim & Han Suk Ryu & Sangmin Kim & Jeong Eon Lee & Yeon Hee Park & Zhengyan Kan & Wonshik Han & Woong-Yang Park, 2017. "Single-cell RNA-seq enables comprehensive tumour and immune cell profiling in primary breast cancer," Nature Communications, Nature, vol. 8(1), pages 1-12, August.
    • Handle: RePEc:nat:natcom:v:8:y:2017:i:1:d:10.1038_ncomms15081
    DOI: 10.1038/ncomms15081
    as

    Download full text from publisher

    File URL: https://www.nature.com/articles/ncomms15081
    File Function: Abstract
    Download Restriction: no
    File URL: https://libkey.io/10.1038/ncomms15081?utm_source=ideas
    LibKey link: if access is restricted and if your library uses this service, LibKey will redirect you to where you can use your library subscription to access this item
    ---><---

    Citations

    Citations are extracted by the CitEc Project, subscribe to its RSS feed for this item.
    as


    Cited by:

    1. Zijian Ni & Aman Prasad & Shuyang Chen & Richard B. Halberg & Lisa M. Arkin & Beth A. Drolet & Michael A. Newton & Christina Kendziorski, 2022. "SpotClean adjusts for spot swapping in spatial transcriptomics data," Nature Communications, Nature, vol. 13(1), pages 1-11, December.

    More about this item

    Statistics

    Access and download statistics

    Corrections

    All material on this site has been provided by the respective publishers and authors. You can help correct errors and omissions. When requesting a correction, please mention this item's handle: RePEc:nat:natcom:v:8:y:2017:i:1:d:10.1038_ncomms15081. See general information about how to correct material in RePEc.

    If you have authored this item and are not yet registered with RePEc, we encourage you to do it here. This allows to link your profile to this item. It also allows you to accept potential citations to this item that we are uncertain about.

    We have no bibliographic references for this item. You can help adding them by using this form .

    If you know of missing items citing this one, you can help us creating those links by adding the relevant references in the same way as above, for each refering item. If you are a registered author of this item, you may also want to check the "citations" tab in your RePEc Author Service profile, as there may be some citations waiting for confirmation.

    For technical questions regarding this item, or to correct its authors, title, abstract, bibliographic or download information, contact: Sonal Shukla or Springer Nature Abstracting and Indexing (email available below). General contact details of provider: http://www.nature.com .

    Please note that corrections may take a couple of weeks to filter through the various RePEc services.

    IDEAS is a RePEc service. RePEc uses bibliographic data supplied by the respective publishers.