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GRASP: GRAph-Structured Pyramidal Whole Slide Image Representation
Feb 06, 2024
Cancer subtyping is one of the most challenging tasks in digital pathology, where Multiple Instance Learning (MIL) by processing gigapixel whole slide images (WSIs) has been in the spotlight of recent research. However, MIL approaches do not take advantage of inter- and intra-magnification information contained in WSIs. In this work, we present GRASP, a novel graph-structured multi-magnification framework for processing WSIs in digital pathology. Our approach is designed to dynamically emulate the pathologist's behavior in handling WSIs and benefits from the hierarchical structure of WSIs. GRASP, which introduces a convergence-based node aggregation instead of traditional pooling mechanisms, outperforms state-of-the-art methods over two distinct cancer datasets by a margin of up to 10% balanced accuracy, while being 7 times smaller than the closest-performing state-of-the-art model in terms of the number of parameters. Our results show that GRASP is dynamic in finding and consulting with different magnifications for subtyping cancers and is reliable and stable across different hyperparameters. The model's behavior has been evaluated by two expert pathologists confirming the interpretability of the model's dynamic. We also provide a theoretical foundation, along with empirical evidence, for our work, explaining how GRASP interacts with different magnifications and nodes in the graph to make predictions. We believe that the strong characteristics yet simple structure of GRASP will encourage the development of interpretable, structure-based designs for WSI representation in digital pathology. Furthermore, we publish two large graph datasets of rare Ovarian and Bladder cancers to contribute to the field.
The Information & Mutual Information Ratio for Counting Image Features and Their Matches
May 14, 2020
Feature extraction and description is an important topic of computer vision, as it is the starting point of a number of tasks such as image reconstruction, stitching, registration, and recognition among many others. In this paper, two new image features are proposed: the Information Ratio (IR) and the Mutual Information Ratio (MIR). The IR is a feature of a single image, while the MIR describes features common across two or more images.We begin by introducing the IR and the MIR and motivate these features in an information theoretical context as the ratio of the self-information of an intensity level over the information contained over the pixels of the same intensity. Notably, the relationship of the IR and MIR with the image entropy and mutual information, classic information measures, are discussed. Finally, the effectiveness of these features is tested through feature extraction over INRIA Copydays datasets and feature matching over the Oxfords Affine Covariant Regions. These numerical evaluations validate the relevance of the IR and MIR in practical computer vision tasks