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In this study, we present a method for generating automated anatomy segmentation datasets using a sequential process that involves nnU-Net-based pseudo-labeling and anatomy-guided pseudo-label refinement. By combining various fragmented…
Rare diseases, including Inborn Errors of Metabolism (IEM), pose significant diagnostic challenges. Case reports serve as key but computationally underutilized resources to inform diagnosis. Clinical dense information extraction refers to…
Clinicians may rely on medical coding systems such as International Classification of Diseases (ICD) to identify patients with diseases from Electronic Health Records (EHRs). However, due to the lack of detail and specificity as well as a…
Electronic health records (EHR) contain large volumes of unstructured text, requiring the application of Information Extraction (IE) technologies to enable clinical analysis. We present the open-source Medical Concept Annotation Toolkit…
Healthcare providers usually record detailed notes of the clinical care delivered to each patient for clinical, research, and billing purposes. Due to the unstructured nature of these narratives, providers employ dedicated staff to assign…
Medical imaging has witnessed remarkable progress but usually requires a large amount of high-quality annotated data which is time-consuming and costly to obtain. To alleviate this burden, semi-supervised learning has garnered attention as…
The extraction of relevant data from Electronic Health Records (EHRs) is crucial to identifying symptoms and automating epidemiological surveillance processes. By harnessing the vast amount of unstructured text in EHRs, we can detect…
Automatic segmentation of lesions in FDG-18 Whole Body (WB) PET/CT scans using deep learning models is instrumental for determining treatment response, optimizing dosimetry, and advancing theranostic applications in oncology. However, the…
Semi-supervised medical image segmentation has gained growing interest due to its ability to utilize unannotated data. The current state-of-the-art methods mostly rely on pseudo-labeling within a co-training framework. These methods depend…
Training deep neural networks usually requires a large amount of labeled data to obtain good performance. However, in medical image analysis, obtaining high-quality labels for the data is laborious and expensive, as accurately annotating…
State-of-the-art information extraction methods are limited by OCR errors. They work well for printed text in form-like documents, but unstructured, handwritten documents still remain a challenge. Adapting existing models to domain-specific…
Objective: Heart failure (HF) patients present with diverse phenotypes affecting treatment and prognosis. This study evaluates models for phenotyping HF patients based on left ventricular ejection fraction (LVEF) classes, using structured…
In this study, we establish a benchmark for adverse drug event (ADE) detection in Dutch clinical free-text documents using several transformer models, clinical scenarios, and fit-for-purpose performance measures. We trained a Bidirectional…
Electronic Health Records are large repositories of valuable clinical data, with a significant portion stored in unstructured text format. This textual data includes clinical events (e.g., disorders, symptoms, findings, medications and…
Large Language Model (LLM) pre-training exhausts an ever growing compute budget, yet recent research has demonstrated that careful document selection enables comparable model quality with only a fraction of the FLOPs. Inspired by efforts…
Cardiac segmentation is in great demand for clinical practice. Due to the enormous labor of manual delineation, unsupervised segmentation is desired. The ill-posed optimization problem of this task is inherently challenging, requiring…
Large numbers of radiographic images are available in knee radiology practices which could be used for training of deep learning models for diagnosis of knee abnormalities. However, those images do not typically contain readily available…
This study evaluates how well large language models (LLMs) can classify ICD-10 codes from hospital discharge summaries, a critical but error-prone task in healthcare. Using 1,500 summaries from the MIMIC-IV dataset and focusing on the 10…
This paper describes novel models tailored for a new application, that of extracting the symptoms mentioned in clinical conversations along with their status. Lack of any publicly available corpus in this privacy-sensitive domain led us to…
The classification of electrocardiogram (ECG) plays a crucial role in the development of an automatic cardiovascular diagnostic system. However, considerable variances in ECG signals between individuals is a significant challenge. Changes…