AQUILA

Background

Current cancer care suffers from considerable over- and undertreatment. This is a consequence of the imperfect prognostic value for individual patients of cancer staging systems (mainly TNM) and prognostic markers currently in use. The resulting mortality and morbidity prompt for urgent identification and validation of more accurate prognosticators that may help to improve survival and avoid morbidity. Recently, the amount and composition of the host immune response were shown to be prognostically superior to TNM stage for, among others, patients with carcinoma of the colon and breast. It was shown that the use of image analysis enables accurate and reproducible assessment of immune cell infiltrate features in digitized microscopic slides. Other studies show that digital image analysis also enables quantification of tumour-to-stroma ratio and other architectural features that have been proven to yield prognostic information independent of clinical, pathological and molecular factors. We hypothesize that jointly assessing these tissue based biomarkers using deep learning applied to digital image analysis delivers superior, reproducible, fast and cheap prognostic information enabling better selection of patients for adjuvant treatment.

Aim

The goal of AQUILA (Automatic QUantification of Infiltrating Lymphocytes in cAncer) is the development and prospective, multicentre validation of deep learning algorithms for extraction of tissue based biomarkers from whole-slide images. By leveraging deep learning in an integrated framework, we expect to achieve a robust and reproducible method that will yield optimal prognostic data in a cost effective way. In this project we will study tissue specimens of primary breast and colon cancer and colorectal liver metastases. The project will yield a unique open-access platform to aid pathologists in their daily routine.

Funding

People

Jeroen van der Laak

Jeroen van der Laak

Associate professor/Group leader

Francesco Ciompi

Francesco Ciompi

Assistant Professor

Oscar Geessink

Oscar Geessink

PhD student

 Quirine Manson

Quirine Manson

Publications

  • F. Ciompi, O.G. F. Geessink, B. Ehteshami Bejnordi, G. Silva de Souza, A. Baidoshvili, G. Litjens, B. van Ginneken, I.D. Nagtegaal and J.A.W.M. van der Laak. "The importance of stain normalization in colorectal tissue classification with convolutional networks", in: IEEE International Symposium on Biomedical Imaging, 2017, pages 160-163. Abstract DOI arXiv
  • Z. Swiderska-Chadaj, H. Pinckaers, M. van Rijthoven, M. Balkenhol, M. Melnikova, O. Geessink, Q. Manson, G. Litjens, J. van der Laak and F. Ciompi. "Convolutional Neural Networks for Lymphocyte detection in Immunohistochemically Stained Whole-Slide Images", in: Medical Imaging with Deep Learning, 2018. Abstract
  • M. van Rijthoven, Z. Swiderska-Chadaj, K. Seeliger, J. van der Laak and F. Ciompi. "You Only Look on Lymphocytes Once", in: Medical Imaging with Deep Learning, 2018. Abstract