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Graph Neural Networks (GNNs) excel in graph-based learning tasks, but their complex, non-linear operations often render them as opaque "black boxes". This opacity hinders user trust, complicates debugging, bias detection, and adoption in…

As the request for deep learning solutions increases, the need for explainability is even more fundamental. In this setting, particular attention has been given to visualization techniques, that try to attribute the right relevance to each…

Deep neural networks (DNNs) show promise in breast cancer screening, but their robustness to input perturbations must be better understood before they can be clinically implemented. There exists extensive literature on this subject in the…

Cell counting in biomedical imaging is pivotal for various clinical applications, yet the interpretability of deep learning models in this domain remains a significant challenge. We propose a novel prototype-based method for interpretable…

Learning an explainable classifier often results in low accuracy model or ends up with a huge rule set, while learning a deep model is usually more capable of handling noisy data at scale, but with the cost of hard to explain the result and…

Deep learning motivated by convolutional neural networks has been highly successful in a range of medical imaging problems like image classification, image segmentation, image synthesis etc. However for validation and interpretability, not…

Networks provide a meaningful way to represent and analyze complex biological information, but the methodological details of network-based tools are often described for a technical audience. Graphery is a hands-on tutorial webserver…

Graph classification benchmarks, vital for assessing and developing graph neural networks (GNNs), have recently been scrutinized, as simple methods like MLPs have demonstrated comparable performance. This leads to an important question: Do…

Breast cancer detection through mammography interpretation remains difficult because of the minimal nature of abnormalities that experts need to identify alongside the variable interpretations between readers. The potential of CNNs for…

Graph Neural Networks (GNNs) have advanced significantly in handling graph-structured data, but a comprehensive framework for evaluating explainability remains lacking. Existing evaluation frameworks primarily involve post-hoc explanations,…

Finding the biomarkers associated with ASD is helpful for understanding the underlying roots of the disorder and can lead to earlier diagnosis and more targeted treatment. A promising approach to identify biomarkers is using Graph Neural…

Despite the promise of Convolutional neural network (CNN) based classification models for histopathological images, it is infeasible to quantify its uncertainties. Moreover, CNNs may suffer from overfitting when the data is biased. We show…

The aggressiveness of prostate cancer, the most common cancer in men worldwide, is primarily assessed based on histopathological data using the Gleason scoring system. While artificial intelligence (AI) has shown promise in accurately…

This paper summarizes our endeavors in the past few years in terms of explaining image classifiers, with the aim of including negative results and insights we have gained. The paper starts with describing the explainable neural network…

The deployment of Machine Learning models intraoperatively for tissue characterisation can assist decision making and guide safe tumour resections. For image classification models, pixel attribution methods are popular to infer…

Modern histopathological image analysis relies on the segmentation of cell structures to derive quantitative metrics required in biomedical research and clinical diagnostics. State-of-the-art deep learning approaches predominantly apply…

Graph kernels are kernel methods measuring graph similarity and serve as a standard tool for graph classification. However, the use of kernel methods for node classification, which is a related problem to graph representation learning, is…

Integrating multi-omics datasets through data-driven analysis offers a comprehensive understanding of the complex biological processes underlying various diseases, particularly cancer. Graph Neural Networks (GNNs) have recently demonstrated…

Explainable Deep Learning has gained significant attention in the field of artificial intelligence (AI), particularly in domains such as medical imaging, where accurate and interpretable machine learning models are crucial for effective…

This paper presents a comprehensive study on the evaluation of explanatory capabilities of machine learning models, with a focus on Decision Trees, Random Forest and XGBoost models using a pancreatic cancer dataset. We use Human-in-the-Loop…