Deep learning for interpretable end-to-end survival (E-E Surv) prediction in gastrointestinal cancer histopathology

Research output: Contribution to journalConference articleContributedpeer-review

Contributors

  • Narmin Ghaffari Laleh - , RWTH Aachen University (Author)
  • Amelie Echle - , RWTH Aachen University (Author)
  • Hannah Sophie Muti - , RWTH Aachen University (Author)
  • Katherine Jane Hewitt - , RWTH Aachen University (Author)
  • Volkmar Schulz - , RWTH Aachen University, Fraunhofer Institute for Digital Medicine, Hyperion Hybrid Imaging Systems GmbH (Author)
  • Jakob Nikolas Kather - , RWTH Aachen University, Heidelberg University , University of Leeds (Author)

Abstract

Digitized histopathology slides contain a wealth of information, only a fraction of which is being used in clinical routine. Deep learning can extract subtle visual features from digitized slides and thus can infer clinically relevant endpoints from raw image data. While classification and regression methods are well established in this domain, end-to-end prediction of patient survival still remains a comparably novel approach. To account for different follow-up times and censored data, previous approaches have largely used discretized survival data. Here, we demonstrate and validate EE-Surv, a powerful yet algorithmically simple method to predict survival directly from whole slide images which we validate in colorectal and gastric cancer, two clinically relevant and markedly different tumor types. We experimentally show that this method yields a highly significant prediction of survival and enables explainability of predictions. This method is publicly available under an open-source license and can be applied to any type of disease.

Details

Original languageEnglish
Pages (from-to)81-93
Number of pages13
JournalProceedings of Machine Learning Research
Volume156
Publication statusPublished - 2021
Peer-reviewedYes
Externally publishedYes

Conference

Title2021 MICCAI Workshop on Computational Pathology, COMPAY 2021
Duration27 September 2021
CityVirtual, Online

Keywords

Sustainable Development Goals

Keywords

  • Convolutional Neural Network, Deep Learning, Digitized Histopathology Images, Survival Prediction, Transfer Learning