Jonas Kuntzer | Searcharxiv

arXiv2026

MIMIC-Note-Extract: A Large-Scale Structured Dataset Extracted from MIMIC-IV-Note Discharge Summaries

MIMIC is one of the most widely used public hospital datasets for machine learning on electronic health records, yet clinically important information, such as past medical history, allergies, and diagnostic findings, remains confined to free-text discharge summaries. Studies requiring this information must therefore build their own extraction pipelines, duplicating substantial effort across projects. We release MIMIC-Note-Extract (MNE), a large-scale dataset that uses a hybrid extraction pipeline combining deterministic parsing with schema-guided large language model generation to transform 16 sections from 300,720 discharge summaries into structured tables. MNE adds information that has no structured MIMIC counterpart and enriches related tables with broader coverage and greater clinical detail, including 10 times more patient-history entries and medication histories for more than twice as many admissions. Validation by medical doctors confirms extraction accuracy above 92% across sections. Using MNE, we construct a clinical decision-making benchmark for LLM agents, demonstrating how reusable structured representations of clinical narratives reduce data curation effort.

cs.CL↗

arXiv2025

Differentially Private Active Learning: Balancing Effective Data Selection and Privacy

Active learning (AL) is a widely used technique for optimizing data labeling in machine learning by iteratively selecting, labeling, and training on the most informative data. However, its integration with formal privacy-preserving methods, particularly differential privacy (DP), remains largely underexplored. While some works have explored differentially private AL for specialized scenarios like online learning, the fundamental challenge of combining AL with DP in standard learning settings has remained unaddressed, severely limiting AL's applicability in privacy-sensitive domains. This work addresses this gap by introducing differentially private active learning (DP-AL) for standard learning settings. We demonstrate that naively integrating DP-SGD training into AL presents substantial challenges in privacy budget allocation and data utilization. To overcome these challenges, we propose step amplification, which leverages individual sampling probabilities in batch creation to maximize data point participation in training steps, thus optimizing data utilization. Additionally, we investigate the effectiveness of various acquisition functions for data selection under privacy constraints, revealing that many commonly used functions become impractical. Our experiments on vision and natural language processing tasks show that DP-AL can improve performance for specific datasets and model architectures. However, our findings also highlight the limitations of AL in privacy-constrained environments, emphasizing the trade-offs between privacy, model accuracy, and data selection accuracy.

cs.LG↗