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Deep neural networks have reached remarkable achievements in medical image processing tasks, specifically in classifying and detecting various diseases. However, when confronted with limited data, these networks face a critical…
In the cancer diagnosis pipeline, digital pathology plays an instrumental role in the identification, staging, and grading of malignant areas on biopsy tissue specimens. High resolution histology images are subject to high variance in…
This dissertation explores the impact of bias in deep neural networks and presents methods for reducing its influence on model performance. The first part begins by categorizing and describing potential sources of bias and errors in data…
Visual microscopic study of diseased tissue by pathologists has been the cornerstone for cancer diagnosis and prognostication for more than a century. Recently, deep learning methods have made significant advances in the analysis and…
Computer aided detection and diagnosis systems based on deep learning have shown promising performance in breast cancer detection. However, there are cases where the obtained results lack justification. In this study, our objective is to…
Machine-learning-assisted cancer subtyping is a promising avenue in digital pathology. Cancer subtyping models, however, require careful training using expert annotations so that they can be inferred with a degree of known certainty (or…
Artificial intelligence methods including deep neural networks (DNN) can provide rapid molecular classification of tumors from routine histology with accuracy that matches or exceeds human pathologists. Discerning how neural networks make…
Digitization of histopathology slides has led to several advances, from easy data sharing and collaborations to the development of digital diagnostic tools. Deep learning (DL) methods for classification and detection have shown great…
Deep learning shows promise for medical image analysis but lacks interpretability, hindering adoption in healthcare. Attribution techniques that explain model reasoning may increase trust in deep learning among clinical stakeholders. This…
The problem of recognizing various types of tissues present in multi-gigapixel histology images is an important fundamental pre-requisite for downstream analysis of the tumor microenvironment in a bottom-up analysis paradigm for…
While machine learning is currently transforming the field of histopathology, the domain lacks a comprehensive evaluation of state-of-the-art models based on essential but complementary quality requirements beyond a mere classification…
Background: Breast cancer has the highest prevalence in women globally. The classification and diagnosis of breast cancer and its histopathological images have always been a hot spot of clinical concern. In Computer-Aided Diagnosis (CAD),…
Using deep learning models to diagnose cancer from histology data presents several challenges. Cancer grading and localization of regions of interest (ROIs) in these images normally relies on both image- and pixel-level labels, the latter…
Digitized Histological diagnosis is in increasing demand. However, color variations due to various factors are imposing obstacles to the diagnosis process. The problem of stain color variations is a well-defined problem with many proposed…
Histopathological characterization of colorectal polyps is an important principle for determining the risk of colorectal cancer and future rates of surveillance for patients. This characterization is time-intensive, requires years of…
The use of deep learning in computer vision tasks such as image classification has led to a rapid increase in the performance of such systems. Due to this substantial increment in the utility of these systems, the use of artificial…
Histological staining is the gold standard for tissue examination in clinical pathology and life-science research, which visualizes the tissue and cellular structures using chromatic dyes or fluorescence labels to aid the microscopic…
Microscopic examination of slides prepared from tissue samples is the primary tool for detecting and classifying cancerous lesions, a process that is time-consuming and requires the expertise of experienced pathologists. Recent advances in…
The complexities inherent to leukemia, multifaceted cancer affecting white blood cells, pose considerable diagnostic and treatment challenges, primarily due to reliance on laborious morphological analyses and expert judgment that are…
To address the challenge of the ``black-box" nature of deep learning in medical settings, we combine GCExplainer - an automated concept discovery solution - along with Logic Explained Networks to provide global explanations for Graph Neural…