Clinical oncology generates vast, unstructured data that often contain inconsistencies, missing information, and ambiguities, making it difficult to extract reliable insights for data-driven decision-making. General-purpose large language models (LLMs) struggle with these challenges due to their lack of domain-specific reasoning, including specialized clinical terminology, context-dependent interpretations, and multi-modal data integration. We address these issues with an oncology-specialized, efficient, and adaptable NLP framework that combines instruction tuning, retrieval-augmented generation (RAG), and graph-based knowledge integration. Our lightweight models prove effective at oncology-specific tasks, such as named entity recognition (e.g., identifying cancer diagnoses), entity linking (e.g., linking entities to standardized ontologies), TNM staging, document classification (e.g., cancer subtype classification from pathology reports), and treatment response prediction. Our framework emphasizes adaptability and resource efficiency. We include minimal German instructions, collected at the University Hospital Zurich (USZ), to test whether small amounts of non-English language data can effectively transfer knowledge across languages. This approach mirrors our motivation for lightweight models, which balance strong performance with reduced computational costs, making them suitable for resource-limited healthcare settings. We validated our models on oncology datasets, demonstrating strong results in named entity recognition, relation extraction, and document classification.

Capturing subtle speech disruptions across the psychosis spectrum is challenging because of the inherent variability in speech patterns. This variability reflects individual differences and the fluctuating nature of symptoms in both clinical and non-clinical populations. Accounting for uncertainty in speech data is essential for predicting symptom severity and improving diagnostic precision. Speech disruptions characteristic of psychosis appear across the spectrum, including in non-clinical individuals. We develop an uncertainty-aware model integrating acoustic and linguistic features to predict symptom severity and psychosis-related traits. Quantifying uncertainty in specific modalities allows the model to address speech variability, improving prediction accuracy. We analyzed speech data from 114 participants, including 32 individuals with early psychosis and 82 with low or high schizotypy, collected through structured interviews, semi-structured autobiographical tasks, and narrative-driven interactions in German. The model improved prediction accuracy, reducing RMSE and achieving an F1-score of 83% with ECE = 4.5e-2, showing robust performance across different interaction contexts. Uncertainty estimation improved model interpretability by identifying reliability differences in speech markers such as pitch variability, fluency disruptions, and spectral instability. The model dynamically adjusted to task structures, weighting acoustic features more in structured settings and linguistic features in unstructured contexts. This approach strengthens early detection, personalized assessment, and clinical decision-making in psychosis-spectrum research.

X-rays have played a fundamental role in medicine since their discovery in 1895 (Röntgen, 1895), and continue to be the most frequently used medical imaging modality worldwide due to their convenience and cost-effectiveness (Akhter et al., 2023). Chest X-ray (CXR) remains the most commonly performed radiological exam globally, particularly important for diagnosing and monitoring thoracic conditions such as pneumonia, heart failure, and lung cancer (Çallı et al., 2021). Problematically, the growing volume of CXRs and other imaging studies in recent years have lead to a reduction in the time available for radiologists to thoroughly evaluate each case (Peng et al., 2022). As a result, in many countries, the responsibility of interpreting CXRs is often transferred to non-radiology physicians, who typically possess less specialized training and experience. This shift increases the risk of diagnostic errors or misinterpretations (Shammari et al., 2021; Peng et al., 2022). The shortage of trained personnel for CXR interpretation has led to the exploration of automated agents to assist physicians in diagnostic tasks. In recent years, various deep learning models have shown promise in clinical applications, such as the detection of conditions like COVID-19 pneumonia (Nishio et al., 2020) or pulmonary nodules (Homayounieh et al., 2021). Another extensively studied task is the automated generation of free text reports from CXR images using transformer-based architectures (Nooralahzadeh et al., 2021; Yang et al., 2023; Hyland et al., 2023; Chaves et al., 2024). These models can provide preliminary drafts summarizing key observations from the CXR, offering a potential enhancement to the diagnostic workflow.

International enterprises, organizations, or hospitals collect large amounts of multi-modal data stored in databases, text documents, images, and videos. While there has been recent progress in the separate fields of multi-modal data exploration as well as in database systems that automatically translate natural language questions to database query languages, the research challenge of querying database systems combined with other unstructured modalities such as images in natural language is widely unexplored. In this paper, we propose XMODE - a system that enables explainable, multi-modal data exploration in natural language. Our approach is based on the following research contributions: (1) Our system is inspired by a real-world use case that enables users to explore multi-modal information systems. (2) XMODE leverages a LLM-based agentic AI framework to decompose a natural language question into subtasks such as text-to-SQL generation and image analysis. (3) Experimental results on multi-modal datasets over relational data and images demonstrate that our system outperforms state-of-the-art multi-modal exploration systems, excelling not only in accuracy but also in various performance metrics such as query latency, API costs, planning efficiency, and explanation quality, thanks to the more effective utilization of the reasoning capabilities of LLMs.

The potential for improvements brought by Large Language Models (LLMs) in Text-to-SQL systems is mostly assessed on monolingual English datasets. However, LLMs' performance for other languages remains vastly unexplored. In this work, we release the StatBot.Swiss dataset, the first bilingual benchmark for evaluating Text-to-SQL systems based on real-world applications. The StatBot.Swiss dataset contains 455 natural language/SQL-pairs over 35 big databases with varying level of complexity for both English and German. We evaluate the performance of state-of-the-art LLMs such as GPT-3.5-Turbo and mixtral-8x7b-instruct for the Text-to-SQL translation task using an in-context learning approach. Our experimental analysis illustrates that current LLMs struggle to generalize well in generating SQL queries on our novel bilingual dataset.

We propose a new automated evaluation metric for machine-generated radiology reports using the successful COMET architecture adapted for the radiology domain. We train and publish four medically-oriented model checkpoints, including one trained on RadGraph, a radiology knowledge graph. Our results show that our metric correlates moderately to high with established metrics such as BERTscore, BLEU, and CheXbert scores. Furthermore, we demonstrate that one of our checkpoints exhibits a high correlation with human judgment, as assessed using the publicly available annotations of six board-certified radiologists, using a set of 200 reports. We also performed our own analysis gathering annotations with two radiologists on a collection of 100 reports. The results indicate the potential effectiveness of our method as a radiology-specific evaluation metric. The code, data, and model checkpoints to reproduce our findings will be publicly available.

Recent transformer-based models have made significant strides in generating radiology reports from chest X-ray images. However, a prominent challenge remains: these models often lack prior knowledge, resulting in the generation of synthetic reports that mistakenly reference non-existent prior exams. This discrepancy can be attributed to a knowledge gap between radiologists and the generation models. While radiologists possess patient-specific prior information, the models solely receive X-ray images at a specific time point. To tackle this issue, we propose a novel approach that leverages a rule-based labeler to extract comparison prior information from radiology reports. This extracted comparison prior is then seamlessly integrated into state-of-the-art transformer-based models, enabling them to produce more realistic and comprehensive reports. Our method is evaluated on English report datasets, such as IU X-ray and MIMIC-CXR. The results demonstrate that our approach surpasses baseline models in terms of natural language generation metrics. Notably, our model generates reports that are free from false references to non-existent prior exams, setting it apart from previous models. By addressing this limitation, our approach represents a significant step towards bridging the gap between radiologists and generation models in the domain of medical report generation.

Background: Federated learning methods offer the possibility of training machine learning models on privacy-sensitive data sets, which cannot be easily shared. Multiple regulations pose strict requirements on the storage and usage of healthcare data, leading to data being in silos (i.e. locked-in at healthcare facilities). The application of federated algorithms on these datasets could accelerate disease diagnostic, drug development, as well as improve patient care. Methods: We present an extensive evaluation of the impact of different federation and differential privacy techniques when training models on the open-source MIMIC-III dataset. We analyze a set of parameters influencing a federated model performance, namely data distribution (homogeneous and heterogeneous), communication strategies (communication rounds vs. local training epochs), federation strategies (FedAvg vs. FedProx). Furthermore, we assess and compare two differential privacy (DP) techniques during model training: a stochastic gradient descent-based differential privacy algorithm (DP-SGD), and a sparse vector differential privacy technique (DP-SVT). Results: Our experiments show that extreme data distributions across sites (imbalance either in the number of patients or the positive label ratios between sites) lead to a deterioration of model performance when trained using the FedAvg strategy. This issue is resolved when using FedProx with the use of appropriate hyperparameter tuning. Furthermore, the results show that both differential privacy techniques can reach model performances similar to those of models trained without DP, however at the expense of a large quantifiable privacy leakage. Conclusions: We evaluate empirically the benefits of two federation strategies and propose optimal strategies for the choice of parameters when using differential privacy techniques.

While several benefits were realized for multilingual vision-language pretrained models, recent benchmarks across various tasks and languages showed poor cross-lingual generalisation when multilingually pre-trained vision-language models are applied to non-English data, with a large gap between (supervised) English performance and (zero-shot) cross-lingual transfer. In this work, we explore the poor performance of these models on a zero-shot cross-lingual visual question answering (VQA) task, where models are fine-tuned on English visual-question data and evaluated on 7 typologically diverse languages. We improve cross-lingual transfer with three strategies: (1) we introduce a linguistic prior objective to augment the cross-entropy loss with a similarity-based loss to guide the model during training, (2) we learn a task-specific subnetwork that improves cross-lingual generalisation and reduces variance without model modification, (3) we augment training examples using synthetic code-mixing to promote alignment of embeddings between source and target languages. Our experiments on xGQA using the pretrained multilingual multimodal transformers UC2 and M3P demonstrate the consistent effectiveness of the proposed fine-tuning strategy for 7 languages, outperforming existing transfer methods with sparse models. Code and data to reproduce our findings are publicly available.