Resources


Database Credentialed Access

AMR-UTI: Antimicrobial Resistance in Urinary Tract Infections

Michael Oberst, Soorajnath Boominathan, Helen Zhou, Sanjat Kanjilal, David Sontag

AMR-UTI is a freely accessible dataset, derived from electronic health record (EHR) information on over 100,000 urinary tract infections (UTI) treated at Massachusetts General Hospital and Brigham & Women's Hospital in Boston, MA, USA.

antibiotic resistance causal inference policy learning antimicrobial resistance urinary tract infection clinical decision support machine learning

Published: Nov. 4, 2020. Version: 1.0.0

Database Credentialed Access

RadGraph: Extracting Clinical Entities and Relations from Radiology Reports

Saahil Jain, Ashwin Agrawal, Adriel Saporta, Steven QH Truong, Du Nguyen Duong, Tan Bui, Pierre Chambon, Matthew Lungren, Andrew Ng, Curtis Langlotz, Pranav Rajpurkar

RadGraph is a dataset of entities and relations in full-text chest X-ray radiology reports, which are obtained using a novel information extraction (IE) schema to capture clinically relevant information in a radiology report.

entity and relation extraction graph multi-modal natural language processing radiology

Published: June 3, 2021. Version: 1.0.0

Database Contributor Review

HiRID, a high time-resolution ICU dataset

Martin Faltys, Marc Zimmermann, Xinrui Lyu, Matthias Hüser, Stephanie Hyland, Gunnar Rätsch, Tobias Merz

The HiRID database contains a large selection of all routinely collected data relating to patient admissions to the Department of Intensive Care Medicine of the Bern University Hospital, Switzerland (ICU).

icu clinical intensive care high resolution critical care machine learning

Published: Feb. 18, 2021. Version: 1.1.1

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

RadQA: A Question Answering Dataset to Improve Comprehension of Radiology Reports

Sarvesh Soni, Kirk Roberts

RadQA is an electronic health record question answering dataset containing clinical questions that can be answered using the Findings and Impressions sections of radiology reports

machine reading comprehension radiology reports question answering clinical notes electronic health records

Published: Dec. 9, 2022. Version: 1.0.0

Database Open Access

Cardiorespiratory measurement from graded cycloergometer exercise testing

Clovis Chabert, Denis Mongin, Eric Hermand, Aurélie Collado, Olivier Hue

Cardiorespiratory measurements acquired during 18 exercise tests performed at French West Indies University

Published: June 30, 2022. Version: 1.0.0

Challenge Credentialed Access

SNOMED CT Entity Linking Challenge

Will Hardman, Mark Banks, Rory Davidson, Donna Truran, Nindya Widita Ayuningtyas, Hoa Ngo, Alistair Johnson, Tom Pollard

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

snomed entity linking clinical annotation

Published: Dec. 19, 2023. Version: 1.0.0

Database Credentialed Access

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

James Mullenbach, Yada Pruksachatkun, Sean Adler, Jennifer Seale, Jordan Swartz, T Greg McKelvey, Yi Yang, David Sontag

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

Synthetic Acute Hypotension and Sepsis Datasets Based on MIMIC-III and Published as Part of the Health Gym Project

Nicholas Kuo, Simon Finfer, Louisa Jorm, Sebastiano Barbieri

This repository hosts the original Health Gym datasets of Acute Hypotension and Sepsis

sepsis acute hypotension synthetic dataset generative modelling wasserstein generative adversarial network reinforcement learning machine learning

Published: Feb. 23, 2022. Version: 1.0.0

Database Restricted Access

CheXchoNet: A Chest Radiograph Dataset with Gold Standard Echocardiography Labels

Pierre Elias, Shreyas Bhave

Early detection of heart failure is vital for improving outcomes. The dataset contains 71,589 CXRs paired with gold standard labels from echocardiograms to enable the training of models to detect pathologies indicative of early stage heart failure.

heart failure chest x-rays early detection cardiac structural abnormalties deep learning

Published: March 20, 2024. Version: 1.0.0