Resources


Database Credentialed Access

EHRXQA: A Multi-Modal Question Answering Dataset for Electronic Health Records with Chest X-ray Images

Seongsu Bae, Daeun Kyung, Jaehee Ryu, et al.

We present EHRXQA, the first multi-modal EHR QA dataset combining structured patient records with aligned chest X-ray images. EHRXQA contains a comprehensive set of QA pairs covering image-related, table-related, and image+table-related questions.

question answering machine learning electronic health records evaluation chest x-ray multi-modal question answering ehr question answering semantic parsing deep learning benchmark visual question answering

Published: July 23, 2024. Version: 1.0.0

Challenge Credentialed Access

Discharge Me: BioNLP ACL'24 Shared Task on Streamlining Discharge Documentation

Justin Xu

Data for the "Discharge Me!" Shared Task on Streamlining Discharge Documentation for BioNLP ACL'24

generation bionlp acl discharge summary

Published: April 12, 2024. Version: 1.3

Database Credentialed Access

RadCoref: Fine-tuning coreference resolution for different styles of clinical narratives

Yuxiang Liao, Hantao Liu, Irena Spasic

RadCoref is a small subset of MIMIC-CXR with manually annotated coreference mentions and clusters. Based on the annotated data, we fine-tuned a deep neural model and used it to annotate the whole MIMIC-CXR dataset. Both data are available.

natural language processing coreference resolution radiology

Published: Jan. 30, 2024. Version: 1.0.0

Database Credentialed Access

BOLD, a blood-gas and oximetry linked dataset

João Matos, Tristan Struja, Jack Gallifant, et al.

An open-source pulse oximetry and arterial blood gas dataset, derived from MIMIC-III, MIMIC-IV, and eICU-CRD

pulse oximetry intensive care unit health equity electronic health records

Published: Nov. 8, 2023. Version: 1.0

Database Credentialed Access

CLIP: A Dataset for Extracting Action Items for Physicians from Hospital Discharge Notes

James Mullenbach, Yada Pruksachatkun, Sean Adler, et al.

Clinical action items annotated over MIMIC-III. 718 discharge summaries are labeled at a sentence- and character-level with multiple action labels including Appointment, Lab, Procedure, Medication, Imaging, Patient Instructions, and Other.

Published: June 21, 2021. Version: 1.0.0

Database Credentialed Access

Clinical Time Series Datasets for Trajectory Flow Matching Evaluation: ICU Sepsis, ICU Cardiac Arrest, and ICU GIB Cohorts

Yuan Pu, Dennis Shung, Alexander Tong, et al.

This resource comprises three clinical time series datasets used in the paper Trajectory Flow Matching with Applications to Clinical Time Series Modeling to evaluate models for handling irregularly sampled data in critical care settings.

clinical time series

Published: March 23, 2026. Version: 1.0.0

Challenge Credentialed Access

SNOMED CT Entity Linking Challenge

Will Hardman, Mark Banks, Rory Davidson, et al.

272 discharge notes from the MIMIC-IV-Note dataset annotated with SNOMED CT concepts.

snomed entity linking clinical annotation

Published: Feb. 17, 2026. Version: 1.2.1

Database Credentialed Access

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

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

A radiologist-annotated benchmark of structured chest X-ray reports at single and sequential levels, comprising 1,473 reports across 18 relation types and 80 longitudinal cases.

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

Database Credentialed Access

EchoGraph-annotated ECHO-NOTE2NUM examples

Chieh-Ju Chao, Mohammad Asadi

EchoGraph is a model that automatically extracts and structures clinical information from echocardiogram reports. The Annotated ECHO-NOTE2NUM Dataset contains MIMIC-III echo reports enhanced with EchoGraph annotations to enhance future research.

Published: Dec. 3, 2025. Version: 1.0.0

Database Contributor Review

ER-REASON: A Benchmark Dataset for LLM-Based Clinical Reasoning in the Emergency Room

Mel Molina, Nikita Mehandru, Niloufar Golchini, et al.

The ER-REASON dataset is a longitudinal collection of 25,174 de-identified clinical notes for 3,437 patients admitted to the emergency room (ER) at a large academic medical center between March 1, 2022, and March 31, 2024.

Published: Oct. 23, 2025. Version: 1.0.0