Converting Annotated Clinical Cases into Structured Case Report Forms

Case Report Forms (CRFs) are largely used in medical research as they ensure accuracy, reliability, and validity of results in clinical studies. However, publicly available, wellannotated CRF datasets are scarce, limiting the development of CRF slot filling systems able to fill in a CRF from clinical notes. To mitigate the scarcity of CRF datasets, we propose to take advantage of available datasets annotated for information extraction tasks and to convert them into structured CRFs. We present a semi-automatic conversion methodology, which has been applied to the E3C dataset in two languages (English and Italian), resulting in a new, high-quality dataset for CRF slot filling. Through several experiments on the created dataset, we report that slot filling achieves 59.7% for Italian and 67.3% for English on a closed Large Language Models (zero-shot) and worse performances on three families of open-source models, showing that filling CRFs is challenging even for recent state-of-the-art LLMs. We release the datest at https://huggingface.co/collections/NLP-FBK/e3c-to-crf-67b9844065460cbe42f80166

ViPlan: A Benchmark for Visual Planning with Symbolic Predicates and Vision-Language Models

Integrating Large Language Models with symbolic planners is a promising direction for obtaining verifiable and grounded plans compared to planning in natural language, with recent works extending this idea to visual domains using Vision-Language Models (VLMs). However, rigorous comparison between VLM-grounded symbolic approaches and methods that plan directly with a VLM has been hindered by a lack of common environments, evaluation protocols and model coverage. We introduce ViPlan, the first open-source benchmark for Visual Planning with symbolic predicates and VLMs. ViPlan features a series of increasingly challenging tasks in two domains: a visual variant of the classic Blocksworld planning problem and a simulated household robotics environment. We benchmark nine open-source VLM families across multiple sizes, along with selected closed models, evaluating both VLM-grounded symbolic planning and using the models directly to propose actions. We find symbolic planning to outperform direct VLM planning in Blocksworld, where accurate image grounding is crucial, whereas the opposite is true in the household robotics tasks, where commonsense knowledge and the ability to recover from errors are beneficial. Finally, we show that across most models and methods, there is no significant benefit to using Chain-of-Thought prompting, suggesting that current VLMs still struggle with visual reasoning.

Low-resource Information Extraction with the European Clinical Case Corpus

We present E3C-3.0, a multilingual dataset in the medical domain, comprising clinical cases annotated with diseases and test-result relations. The dataset includes both native texts in five languages (English, French, Italian, Spanish and Basque) and texts translated and projected from the English source into five target languages (Greek, Italian, Polish, Slovak, and Slovenian). A semi-automatic approach has been implemented, including automatic annotation projection based on Large Language Models (LLMs) and human revision. We present several experiments showing that current state-of-the-art LLMs can benefit from being fine-tuned on the E3C-3.0 dataset. We also show that transfer learning in different languages is very effective, mitigating the scarcity of data. Finally, we compare performance both on native data and on projected data. We release the data at https://huggingface.co/collections/NLP-FBK/e3c-projected-676a7d6221608d60e4e9fd89 .