Resources


Database Credentialed Access

PIFIR: PET-CT Invasive Fungal Infection Reports

Vlada Rozova, Anna Khanina, Jeremy Ong, et al.

A corpus of PET-CT reports annotated for terminology relevant to fungal infections. Ideal for validation of named entity recognition and relation extraction methods.

nlp clinical documentation information extraction invasive fungal infections

Published: Feb. 27, 2025. Version: 1.0.0

Database Credentialed Access

FFA-IR: Towards an Explainable and Reliable Medical Report Generation Benchmark

Mingjie Li, Wenjia Cai, Rui Liu, et al.

Benchmark dataset for report generation based on fundus fluorescein angiography images and reports.

fundus fluorescein angiography medical report generation vision and language explainable and reliable evaluation

Published: Jan. 21, 2025. Version: 1.1.0

Database Credentialed Access

MedDec: Medical Decisions for Discharge Summaries in the MIMIC-III Database

Mohamed Elgaar, Jiali Cheng, Nidhi Vakil, et al.

Annotations of ten types of medical decisions from discharge summaries in the MIMIC-III database.

natural language processing medical decisions span classification discharge summary mimic

Published: Oct. 16, 2024. Version: 1.0.0

Database Open Access

VTaC: A Benchmark Dataset of Ventricular Tachycardia Alarms from ICU Monitors

Li-wei Lehman, Benjamin Moody, Lucas McCullum, et al.

VTaC is an annotated ventricular tachycardia (VT) arrhythmia alarm database containing over 5,000 waveform recordings with VT alarms from ICU monitors, with each alarm labeled as either true or false by at least two human expert annotators.

arrhythmia machine learning icu false alarms benchmark dataset ventricular tachycardia

Published: Oct. 1, 2024. Version: 1.0

Visualize waveforms

Database Credentialed Access

CHIFIR: Cytology and Histopathology Invasive Fungal Infection Reports

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

A corpus of cytology and histopathology reports annotated for terminology relevant to fungal infections. Ideal for validation of named entity recognition and relation extraction methods.

nlp clinical documentation information extraction invasive fungal infections

Published: Feb. 20, 2024. Version: 1.0.2

Challenge Credentialed Access

BioNLP Workshop 2023 Shared Task 1A: Problem List Summarization

Yanjun Gao, Dmitriy Dligach, Timothy Miller, et al.

This is the data storage for BioNLP Workshop Shared Task 1A: Problem List Summarization.

bionlp clinical natural language processing electronic health record summarization

Published: Nov. 12, 2023. Version: 2.0.0

Database Open Access

PTB-XL, a large publicly available electrocardiography dataset

Patrick Wagner, Nils Strodthoff, Ralf-Dieter Bousseljot, et al.

The PTB-XL ECG dataset is a large dataset of 21801 clinical 12-lead ECGs from 18869 patients of 10 second length. The raw signal data has been annotated by up to two cardiologists with 71 different ECG statements and is supplemented by rich metadata.

ptb-xl ptb ecg electrocardiography

Published: Nov. 9, 2022. Version: 1.0.3

Visualize waveforms

Database Restricted Access

VinDr-PCXR: An open, large-scale pediatric chest X-ray dataset for interpretation of common thoracic diseases

Hieu Huy Pham, Tien Thanh Tran, Ha Quy Nguyen

An open, large-scale pediatric chest X-ray dataset that contains both lesion-level labels and image-level labels for multiple findings and diseases for interpretation of common thoracic diseases.

Published: March 21, 2022. Version: 1.0.0

Database Credentialed Access

Chest ImaGenome Dataset

Joy Wu, Nkechinyere Agu, Ismini Lourentzou, et al.

The Chest ImaGenome dataset is a scene graph dataset with additional chronological comparison relations for chest X-rays. It is automatically derived from the MIMIC-CXR dataset. A manually annotated gold standard is also available for 500 patients.

scene graph visual dialogue object detection semantic reasoning bounding box knowledge graph explainability reasoning relation extraction chest disease progression cxr machine learning chest x-ray radiology multimodal deep learning visual question answering

Published: July 13, 2021. Version: 1.0.0

Database Credentialed Access

RadNLI: A natural language inference dataset for the radiology domain

Yasuhide Miura, Yuhao Zhang, Emily Tsai, et al.

A radiology NLI dataset introduced in the paper: Improving Factual Completeness and Consistency of Image-to-text Radiology Report Generation

Published: June 29, 2021. Version: 1.0.0