Deep learning can predict microsatellite instability directly from histology in gastrointestinal cancer.

Journal: Nature medicine
PMID: 31160815

Abstract

Microsatellite instability determines whether patients with gastrointestinal cancer respond exceptionally well to immunotherapy. However, in clinical practice, not every patient is tested for MSI, because this requires additional genetic or immunohistochemical tests. Here we show that deep residual learning can predict MSI directly from H&E histology, which is ubiquitously available. This approach has the potential to provide immunotherapy to a much broader subset of patients with gastrointestinal cancer.

Authors

  • Jakob Nikolas Kather
    Department of Medicine III, University Hospital RWTH Aachen, Aachen, Germany.
  • Alexander T Pearson
    Hematology/Oncology, Department of Medicine, University of Chicago, Chicago, IL, USA.
  • Niels Halama
    Department of Medical Oncology and Internal Medicine VI, National Center for Tumor Diseases, University Hospital Heidelberg, Heidelberg, Germany.
  • Dirk Jäger
    Department of Medical Oncology and Internal Medicine VI, National Center for Tumor Diseases, University Hospital Heidelberg, Heidelberg, Germany.
  • Jeremias Krause
    Department of Medicine III, University Hospital RWTH Aachen, Aachen, Germany.
  • Sven H Loosen
    Department of Medicine III, University Hospital RWTH Aachen, Aachen, Germany.
  • Alexander Marx
    Institute of Pathology, University Medical Center Mannheim, Mannheim, Germany.
  • Peter Boor
    Institute of Pathology, University Hospital Aachen, RWTH Aachen University, Aachen, Germany.
  • Frank Tacke
    Hepatology and Gastroenterology, Charité University Medicine, Berlin, Germany.
  • Ulf Peter Neumann
    Visceral and Transplant Surgery, University Hospital RWTH Aachen, Aachen, Germany.
  • Heike I Grabsch
    Department of Pathology, GROW School for Oncology and Reproduction, Maastricht University Medical Center+, Maastricht, Netherlands.
  • Takaki Yoshikawa
  • Hermann Brenner
    German Cancer Consortium (DKTK), Heidelberg, Germany.
  • Jenny Chang-Claude
    Division of Clinical Epidemiology and Aging Research, German Cancer Research Center (DKFZ), Heidelberg, Germany.
  • Michael Hoffmeister
    Division of Clinical Epidemiology and Aging Research, German Cancer Research Center (DKFZ), Heidelberg, Germany.
  • Christian Trautwein
    Department of Medicine III, University Hospital RWTH Aachen, Aachen, Germany.
  • Tom Luedde
    Division of Gastroenterology, Hepatology and Hepatobiliary Oncology, University Hospital RWTH Aachen, Aachen, Germany.

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