Automatic ICD coding, the task of assigning disease and procedure codes to electronic medical records, is crucial for clinical documentation and billing. While existing methods primarily enhance model understanding of code hierarchies and synonyms, they often overlook the pervasive use of medical acronyms in clinical notes, a key factor in ICD code inference. To address this gap, we propose a novel effective data augmentation technique that leverages large language models to expand medical acronyms, allowing models to be trained on their full form representations. Moreover, we incorporate consistency training to regularize predictions by enforcing agreement between the original and augmented documents. Extensive experiments on the MIMIC-III dataset demonstrate that our approach, ACE-ICD establishes new state-of-the-art performance across multiple settings, including common codes, rare codes, and full-code assignments. Our code is publicly available.

This paper presents our approach to the ArchEHR shared task on generating answers to real-world patient questions grounded in evidence from electronic health records (EHRs). We investigate the zero-shot capabilities of general-purpose, domain-agnostic large language models (LLMs) in two key aspects: identifying essential supporting evidence and producing concise, coherent answers. To this aim, we propose a two-stage pipeline: (1) evidence identification via test-time scaling (TTS) and (2) generating the final answer conditioned on selected evidences from the previous stage.Our approach leverages high-temperature sampling to generate multiple outputs during the evidence selection phase. This TTS-based approach effectively explore more potential evidences which results in significant improvement of the factuality score of the answers.

In this paper, we report our effort to tackle the challenge of extracting chemotimelines from EHR notes across a dataset of three cancer types. We focus on the two subtasks: 1) detection and classification of temporal relations given the annotated chemotherapy events and time expressions and 2) directly extracting patient chemotherapy timelines from EHR notes. We address both subtasks using Large Language Models. Our best-performing methods in both subtasks use Flan-T5, an instruction-tuned language model. Our proposed system achieves the highest average score in both subtasks. Our results underscore the effectiveness of finetuning general-domain large language models in domain-specific and unseen tasks.