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We present a systematic benchmark of out-of-distribution (OOD) detection CSFs through a representation-centric lens. Our study spans CNN and ViT backbones, multiple training paradigms, four image-classification source datasets (CIFAR-10,…

In the recent decade, the emergence of liquid biopsy has significantly improved cancer monitoring and detection. Dying cells, including those originating from tumors, shed their DNA into the bloodstream and contribute to a pool of…

Remarkable progress has been made in image recognition, primarily due to the availability of large-scale annotated datasets and the revival of deep CNN. CNNs enable learning data-driven, highly representative, layered hierarchical image…

Sparse representation based classification (SRC) methods have achieved remarkable results. SRC, however, still suffer from requiring enough training samples, insufficient use of test samples and instability of representation. In this paper,…

Data-driven methods have shown tremendous progress in medical image analysis. In this context, deep learning-based supervised methods are widely popular. However, they require a large amount of training data and face issues in…

Coronary artery disease (CAD) is often treated minimally invasively with a catheter being inserted into the diseased coronary vessel. If a patient exhibits a Shepherd's Crook (SC) Right Coronary Artery (RCA) - an anatomical norm variant of…

Representation learning offers a conduit to elucidate distinctive features within the latent space and interpret the deep models. However, the randomness of lesion distribution and the complexity of low-quality factors in medical images…

Accurate disease detection is of paramount importance for effective medical treatment and patient care. However, the process of disease detection is often associated with extensive medical testing and considerable costs, making it…

To address the challenge of utilizing patient data from other organ transplant centers (source cohorts) to improve survival time estimation and inference for a target center (target cohort) with limited samples and strict data-sharing…

Chronic obstructive pulmonary disease (COPD) is a lung disease which can be quantified using chest computed tomography (CT) scans. Recent studies have shown that COPD can be automatically diagnosed using weakly supervised learning of…

Colorectal cancer liver metastases (CLM) are the most common type of distant metastases originating from the abdomen and are characterized by a high recurrence rate after curative resection. It has been previously reported that CLM…

Purpose: Identifying intravenous (IV) contrast use within CT scans is a key component of data curation for model development and testing. Currently, IV contrast is poorly documented in imaging metadata and necessitates manual correction and…

Clustering analysis is fundamental in single-cell RNA sequencing (scRNA-seq) data analysis for elucidating cellular heterogeneity and diversity. Recent graph-based scRNA-seq clustering methods, particularly graph neural networks (GNNs),…

Retrieval-Augmented Generation (RAG) systems for biomedical literature are typically evaluated using ranking metrics like Mean Reciprocal Rank (MRR), which measure how well the system identifies the single most relevant chunk. We argue that…

Cell clustering is crucial for uncovering cellular heterogeneity in single-cell RNA sequencing (scRNA-seq) data by identifying cell types and marker genes. Despite its importance, benchmarks for scRNA-seq clustering methods remain…

Chronic Kidney Disease (CKD) constitutes a major global medical burden, marked by the gradual deterioration of renal function, which results in the impaired clearance of metabolic waste and disturbances in systemic fluid homeostasis. Owing…

Segmental duplications (SDs), or low-copy repeats (LCR), are segments of DNA greater than 1 Kbp with high sequence identity that are copied to other regions of the genome. SDs are among the most important sources of evolution, a common…

Colorectal cancer remains a major global health concern, with early detection being pivotal for improving patient outcomes. In this study, we leveraged high throughput methylation profiling of cellfree DNA to identify and validate…

Accurate morphological classification of white blood cells (WBCs) is an important step in the diagnosis of leukemia, a disease in which nonfunctional blast cells accumulate in the bone marrow. Recently, deep convolutional neural networks…

International Classification of Disease (ICD) coding procedure which refers to tagging medical notes with diagnosis codes has been shown to be effective and crucial to the billing system in medical sector. Currently, ICD codes are assigned…