Resources

7 results for "medical text structuring"

Database Credentialed Access

Annotation dataset of problematic opioid use and related contexts from MIMIC-III Critical Care Database discharge summaries

Melissa Poulsen, Vanessa Troiani, Philip Freda, et al.

Opioid use disorder (OUD) is underdiagnosed in health system settings, limiting research on OUD using electronic health records (EHRs). Medical encounter notes can enrich structured EHR data with documented signs and symptoms of OUD and social risks…
opioid use disorder substance use natural language processing clinical notes
Published: Feb. 8, 2023. Version: 1.0.0
Database Credentialed Access

MIMIC-IV-Ext-BHC: Labeled Clinical Notes Dataset for Hospital Course Summarization

Asad Aali, Dave Van Veen, Yamin Arefeen, et al.

This dataset presents a curated collection of preprocessed and labeled clinical notes derived from the MIMIC-IV-Note database. The primary aim of this resource is to facilitate the development and training of machine learning models focused on summa…
natural language processing text summarization brief hospital course clinical notes machine learning
Published: Feb. 3, 2025. Version: 1.2.0
Database Credentialed Access

CHIFIR: Cytology and Histopathology Invasive Fungal Infection Reports

Vlada Rozova, Anna Khanina, Jasmine Teng, et al.

Surveillance of invasive fungal infection (IFI) in clinical settings is a laborious process requiring a detailed review of patient medical history. One of the key sources of clinical information is cytology and histopathology reports: pathologist-pr…
nlp clinical documentation information extraction invasive fungal infections
Published: Feb. 20, 2024. Version: 1.0.2
Database Restricted Access

Application of Med-PaLM 2 in the refinement of MIMIC-CXR labels

Kendall Park, Rory Sayres, Andrew Sellergren, et al.

MIMIC-CXR is a large, open source dataset that is widely-used in medical AI research. One of the limitations of this dataset is the lack of ground truth labels for the chest X-ray studies. Prior work has extracted structured labels from the MIMIC-CX…
mimic-cxr labels
Published: Feb. 4, 2025. Version: 1.0.0
Database Credentialed Access

MIMIC-III-Ext-MIMIC-Patient: Structured Per-Patient JSON Records for Clinical Question Answering

Tianqi Shang, Weiqing He, Charles Zheng, et al.

This project provides MIMIC-Patient, a structured, per-patient representation of the MIMIC-III database designed for large language model (LLM)–based clinical question answering. For each of 500 admissions, we reconstruct the patient’s episode into …
Published: Sept. 11, 2026. Version: 1.0.0
Database Open Access

Synthetic Mention Corpora for Disease Entity Recognition and Normalization

Kuleen Sasse, John David Osborne

Named Entity Recognition (NER) and Entity Normalization (EN) are fundamental tasks in information extraction, particularly in the biomedical and clinical domains. NER identifies textual mentions of entities, while EN maps these mentions to unique id…
nlp entity normalization named entity recognition data augmentation machine learning
Published: Feb. 3, 2025. Version: 1.0.0
Database Credentialed Access

Lunguage: A Benchmark for Structured and Sequential Chest X-ray Interpretation

Jong Hak Moon, Geon Choi, Paloma Rabaey, et al.

Radiology reports convey detailed clinical observations and capture diagnostic reasoning that evolves over time. However, existing evaluation methods are limited to single-report settings and rely on coarse metrics that fail to capture fine-grained …
fine-grained structured reports attribute-level clinical reasoning medical text structuring longitudinal clinical reasoning chest x-ray report parsing medical information structuring benchmark dataset for radiology report medical information extraction structured radiology reports temporal relation extraction radiology report benchmarking longitudinal clinical understanding
Published: Jan. 11, 2026. Version: 1.0.0