ArchEHR-QA is a grounded question-answering (QA) task for electronic health records (EHRs) comprising four subtasks: (1) question rewriting, (2) evidence identification, (3) grounded answer generation, and (4) answer-evidence alignment. In this work, we present a modular pipeline centered on retrieval-augmented generation (RAG). For Subtask 1, RAG few-shot prompting outperformed both PEFT and prompt-only baselines on the development set; however, Claude few-shot proved substantially more robust on the test set, ranking 6th out of 13 participating teams (score: 26.94). For Subtask 2, a union ensemble of open-weight LLMs (GPT-OSS-120B and Qwen3-30B-A3B) achieved a 56.7 micro-F1, rivaling the proprietary Claude Opus 4.6 while demonstrating higher recall (53.6). For Subtask 3, our RAG few-shot approach using Claude Opus 4.5 achieved the 1st place out of 13 participating teams (score: 36.33). Finally, for Subtask 4, a zero-shot Claude Opus 4.6 configuration ranked 2nd out of 16 participating teams (score: 81.3).

Recent advances in natural language processing (NLP) can be largely attributed to the advent of pre-trained language models such as BERT and RoBERTa. While these models demonstrate remarkable performance on general datasets, they can struggle in specialized domains such as medicine, where unique domain-specific terminologies, domain-specific abbreviations, and varying document structures are common. This paper explores strategies for adapting these models to domain-specific requirements, primarily through continuous pre-training on domain-specific data. We pre-trained several German medical language models on 2.4B tokens derived from translated public English medical data and 3B tokens of German clinical data. The resulting models were evaluated on various German downstream tasks, including named entity recognition (NER), multi-label classification, and extractive question answering. Our results suggest that models augmented by clinical and translation-based pre-training typically outperform general domain models in medical contexts. We conclude that continuous pre-training has demonstrated the ability to match or even exceed the performance of clinical models trained from scratch. Furthermore, pre-training on clinical data or leveraging translated texts have proven to be reliable methods for domain adaptation in medical NLP tasks.

This paper details the efforts of the WisPerMed team in the BioLaySumm2024 Shared Task on automatic lay summarization in the biomedical domain, aimed at making scientific publications accessible to non-specialists. Large language models (LLMs), specifically the BioMistral and Llama3 models, were fine-tuned and employed to create lay summaries from complex scientific texts. The summarization performance was enhanced through various approaches, including instruction tuning, few-shot learning, and prompt variations tailored to incorporate specific context information. The experiments demonstrated that fine-tuning generally led to the best performance across most evaluated metrics. Few-shot learning notably improved the models’ ability to generate relevant and factually accurate texts, particularly when using a well-crafted prompt. Additionally, a Dynamic Expert Selection (DES) mechanism to optimize the selection of text outputs based on readability and factuality metrics was developed. Out of 54 participants, the WisPerMed team reached the 4th place, measured by readability, factuality, and relevance. Determined by the overall score, our approach improved upon the baseline by approx. 5.5 percentage points and was only approx. 1.5 percentage points behind the first place.