Cluster-to-Conquer: A Framework for End-to-End Multi-Instance Learning for Whole Slide Image ClassificationDownload PDF

Feb 11, 2021 (edited Feb 22, 2021)MIDL 2021 Conference SubmissionReaders: Everyone
  • Keywords: Deep Learning, Multi-Instance Learning, Weak Supervision, Histopathology, Medical Imaging
  • Abstract: In recent years, the availability of digitized Whole Slide Images (WSIs) has enabled the use of deep learning-based computer vision techniques for automated disease diagnosis. However, WSIs present unique computational and algorithmic challenges. WSIs are gigapixel-sized ($\sim$100K pixels), making them infeasible to be used directly for training deep neural networks. Also, often only slide-level labels are available for training as detailed annotations are tedious and can be time-consuming for experts. Approaches using multiple-instance learning (MIL) frameworks have been shown to overcome these challenges. Current state-of-the-art approaches divide the learning framework into two decoupled parts: a convolutional neural network (CNN) for encoding the patches followed by an independent aggregation approach for slide-level prediction. In this approach, the aggregation step has no bearing on the representations learned by the CNN encoder. We have proposed an end-to-end framework that clusters the patches from a WSI into ${k}$-groups, samples ${k}'$ patches from each group for training, and uses an adaptive attention mechanism for slide level prediction; Cluster-to-Conquer (C2C). We have demonstrated that dividing a WSI into clusters can improve the model training by exposing it to diverse discriminative features extracted from the patches. We regularized the clustering mechanism by introducing a KL-divergence loss between the attention weights of patches in a cluster and the uniform distribution. The framework is optimized end-to-end on slide-level cross-entropy, patch-level cross-entropy, and KL-divergence loss.
  • Registration: I acknowledge that publication of this at MIDL and in the proceedings requires at least one of the authors to register and present the work during the conference.
  • Source Code Url: https://github.com/YashSharma/C2C
  • Authorship: I confirm that I am the author of this work and that it has not been submitted to another publication before.
  • Paper Type: both
  • Source Latex: zip
  • Primary Subject Area: Detection and Diagnosis
  • Secondary Subject Area: Application: Histopathology
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