Joram M. Posma

Abdurrahim Yilmaz, Furkan Yuceyalcin, Ece Gokyayla et al.

A major barrier to developing vision large language models (LLMs) in dermatology is the lack of large image--text pairs dataset. We introduce DermaSynth, a dataset comprising of 92,020 synthetic image--text pairs curated from 45,205 images (13,568 clinical and 35,561 dermatoscopic) for dermatology-related clinical tasks. Leveraging state-of-the-art LLMs, using Gemini 2.0, we used clinically related prompts and self-instruct method to generate diverse and rich synthetic texts. Metadata of the datasets were incorporated into the input prompts by targeting to reduce potential hallucinations. The resulting dataset builds upon open access dermatological image repositories (DERM12345, BCN20000, PAD-UFES-20, SCIN, and HIBA) that have permissive CC-BY-4.0 licenses. We also fine-tuned a preliminary Llama-3.2-11B-Vision-Instruct model, DermatoLlama 1.0, on 5,000 samples. We anticipate this dataset to support and accelerate AI research in dermatology. Data and code underlying this work are accessible at https://github.com/abdurrahimyilmaz/DermaSynth.

Hajung Kim, Chanhwi Kim, Jiwoong Sohn et al.

The objective of BioCreative8 Track 3 is to extract phenotypic key medical findings embedded within EHR texts and subsequently normalize these findings to their Human Phenotype Ontology (HPO) terms. However, the presence of diverse surface forms in phenotypic findings makes it challenging to accurately normalize them to the correct HPO terms. To address this challenge, we explored various models for named entity recognition and implemented data augmentation techniques such as synonym marginalization to enhance the normalization step. Our pipeline resulted in an exact extraction and normalization F1 score 2.6\% higher than the mean score of all submissions received in response to the challenge. Furthermore, in terms of the normalization F1 score, our approach surpassed the average performance by 1.9\%. These findings contribute to the advancement of automated medical data extraction and normalization techniques, showcasing potential pathways for future research and application in the biomedical domain.

Marc Boubnovski Martell, Kristofer Linton-Reid, Mitchell Chen et al.

High-resolution volumetric computed tomography (CT) is essential for accurate diagnosis and treatment planning in thoracic diseases; however, it is limited by radiation dose and hardware costs. We present the Transformer Volumetric Super-Resolution Network (\textbf{TVSRN-V2}), a transformer-based super-resolution (SR) framework designed for practical deployment in clinical lung CT analysis. Built from scalable components, including Through-Plane Attention Blocks (TAB) and Swin Transformer V2 -- our model effectively reconstructs fine anatomical details in low-dose CT volumes and integrates seamlessly with downstream analysis pipelines. We evaluate its effectiveness on three critical lung cancer tasks -- lobe segmentation, radiomics, and prognosis -- across multiple clinical cohorts. To enhance robustness across variable acquisition protocols, we introduce pseudo-low-resolution augmentation, simulating scanner diversity without requiring private data. TVSRN-V2 demonstrates a significant improvement in segmentation accuracy (+4\% Dice), higher radiomic feature reproducibility, and enhanced predictive performance (+0.06 C-index and AUC). These results indicate that SR-driven recovery of structural detail significantly enhances clinical decision support, positioning TVSRN-V2 as a well-engineered, clinically viable system for dose-efficient imaging and quantitative analysis in real-world CT workflows.

Marc Boubnovski Martell, Mitchell Chen, Kristofer Linton-Reid et al.

Automated lobar segmentation allows regional evaluation of lung disease and is important for diagnosis and therapy planning. Advanced statistical workflows permitting such evaluation is a needed area within respiratory medicine; their adoption remains slow, with poor workflow accuracy. Diseased lung regions often produce high-density zones on CT images, limiting an algorithm's execution to specify damaged lobes due to oblique or lacking fissures. This impact motivated developing an improved machine learning method to segment lung lobes that utilises tracheobronchial tree information to enhance segmentation accuracy through the algorithm's spatial familiarity to define lobar extent more accurately. The method undertakes parallel segmentation of lobes and auxiliary tissues simultaneously by employing multi-task learning (MTL) in conjunction with V-Net-attention, a popular convolutional neural network in the imaging realm. In keeping with the model's adeptness for better generalisation, high performance was retained in an external dataset of patients with four distinct diseases: severe lung cancer, COVID-19 pneumonitis, collapsed lungs and Chronic Obstructive Pulmonary Disease (COPD), even though the training data included none of these cases. The benefit of our external validation test is specifically relevant since our choice includes those patients who have diagnosed lung disease with associated radiological abnormalities. To ensure equal rank is given to all segmentations in the main task we report the following performance (Dice score) on a per-segment basis: normal lungs 0.97, COPD 0.94, lung cancer 0.94, COVID-19 pneumonitis 0.94 and collapsed lung 0.92, all at p<0.05. Even segmenting lobes with large deformations on CT images, the model maintained high accuracy. The approach can be readily adopted in the clinical setting as a robust tool for radiologists.