Assessing genotype-phenotype correlations in colorectal cancer with deep learning: a multicentre cohort study.

Journal: The Lancet. Digital health
Published Date:

Abstract

BACKGROUND: Deep learning-based models enable the prediction of molecular biomarkers from histopathology slides of colorectal cancer stained with haematoxylin and eosin; however, few studies have assessed prediction targets beyond microsatellite instability (MSI), BRAF, and KRAS systematically. We aimed to develop and validate a multi-target model based on deep learning for the simultaneous prediction of numerous genetic alterations and their associated phenotypes in colorectal cancer.

Authors

  • Marco Gustav
    Else Kroener Fresenius Center for Digital Health, Faculty of Medicine and University Hospital Carl Gustav Carus, Dresden University of Technology, Dresden, Germany.
  • Marko van Treeck
    Department of Medicine III, University Hospital RWTH Aachen, Aachen, Germany.
  • Nic G Reitsam
    Pathology, Faculty of Medicine, University of Augsburg, Augsburg, Germany.
  • Zunamys I Carrero
    Else Kroener Fresenius Center for Digital Health, Medical Faculty Carl Gustav Carus, Technical University Dresden, Dresden, Germany.
  • Chiara M L Loeffler
    Department of Medicine 1, University Hospital Carl Gustav Carus, Technical University Dresden, Dresden, Germany.
  • Asier Rabasco Meneghetti
    Else Kroener Fresenius Center for Digital Health, Faculty of Medicine and University Hospital Carl Gustav Carus, Dresden University of Technology, Dresden, Germany.
  • Bruno Märkl
    Department of Pathology, University Hospital of Augsburg, Augsburg, Germany.
  • Lisa A Boardman
    Division of Gastroenterology and Hepatology, Mayo Clinic, Rochester, MN, USA.
  • Amy J French
    Division of Laboratory Genetics, Department of Laboratory Medicine and Pathology, Mayo Clinic, Rochester, MN, USA.
  • Ellen L Goode
    Division of Epidemiology, Department of Health Sciences Research, Mayo Clinic, 205 3rd Ave SW, Rochester, MN, 55905, USA.
  • Andrea Gsur
    Center for Cancer Research, Medical University of Vienna, Vienna, Austria.
  • Stefanie Brezina
    Center for Cancer Research, Medical University of Vienna, Vienna, Austria.
  • Marc J Gunter
    Nutrition and Metabolism Branch, International Agency for Research on Cancer, WHO, Lyon, France; Cancer Epidemiology and Prevention Research Unit, School of Public Health, Imperial College London, London, UK.
  • Neil Murphy
    Nutrition and Metabolism Branch, International Agency for Research on Cancer, WHO, Lyon, France.
  • Pia Hönscheid
    Institute of Pathology, University Hospital Carl Gustav Carus, Dresden University of Technology, Dresden, Germany; National Center for Tumor Diseases, Partner Site Dresden, German Cancer Research Center Heidelberg, Dresden, Germany; German Cancer Consortium and German Cancer Research Center, Heidelberg, Germany.
  • Christian Sperling
    Institute of Pathology, University Hospital Carl Gustav Carus, Dresden University of Technology, Dresden, Germany.
  • Sebastian Foersch
    Institute of Pathology, University Medical Center Mainz, Mainz, Germany. Electronic address: sebastian.foersch@unimedizin-mainz.de.
  • Robert Steinfelder
    Division of Public Health Sciences, Fred Hutchinson Cancer Center, Seattle, WA, USA.
  • Tabitha Harrison
    Division of Public Health Sciences, Fred Hutchinson Cancer Center, Seattle, WA, USA; Department of Epidemiology, University of Washington, Seattle, WA, USA.
  • Ulrike Peters
    Fred Hutchinson Cancer Center, Seattle, WA, United States.
  • Amanda Phipps
    Division of Public Health Sciences, Fred Hutchinson Cancer Center, Seattle, WA, USA; Department of Epidemiology, University of Washington, Seattle, WA, USA.
  • Jakob Nikolas Kather
    Department of Medicine III, University Hospital RWTH Aachen, Aachen, Germany.

Keywords

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