PhysioNet

Featured Resources

Database Open Access

VitalDB, a high-fidelity multi-parameter vital signs database in surgical patients

Hyung-Chul Lee, Chul-Woo Jung

VitalDB, a high-fidelity multi-parameter vital signs database in surgical patients

waveform anesthesia vitaldb intraoperative biosignal ecg

Published: Sept. 21, 2022. Version: 1.0.0

Database Open Access

PTB-XL, a large publicly available electrocardiography dataset

Patrick Wagner, Nils Strodthoff, Ralf-Dieter Bousseljot, Wojciech Samek, Tobias Schaeffter

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.

electrocardiography ptb-xl ptb ecg

Published: Nov. 9, 2022. Version: 1.0.3

Visualize waveforms

Database Credentialed Access

MIMIC-IV

Alistair Johnson, Lucas Bulgarelli, Tom Pollard, Steven Horng, Leo Anthony Celi, Roger Mark

Large database of de-identified health information from patients admitted to Beth Israel Deaconess Medical Center

mimic machine learning critical care intensive care unit

Published: Jan. 6, 2023. Version: 2.2

Database Credentialed Access

MIMIC-CXR Database

Alistair Johnson, Tom Pollard, Roger Mark, Seth Berkowitz, Steven Horng

Chest radiographs in DICOM format with associated free-text reports.

mimic computer vision machine learning chest x-rays radiology natural language processing

Published: Sept. 19, 2019. Version: 2.0.0

Database Credentialed Access

BRAX, a Brazilian labeled chest X-ray dataset

Eduardo Pontes Reis, Joselisa Paiva, Maria Carolina Bueno da Silva, Guilherme Alberto Sousa Ribeiro, Victor Fornasiero Paiva, Lucas Bulgarelli, Henrique Lee, Paulo Victor dos Santos, vanessa brito, Lucas Amaral, Gabriel Beraldo, Jorge Nebhan Haidar Filho, Gustavo Teles, Gilberto Szarf, Tom Pollard, Alistair Johnson, Leo Anthony Celi, Edson Amaro

BRAX contains 24,959 chest radiography exams and 40,967 images acquired in a large general Brazilian hospital. All images have been read by trained radiologists and 14 labels were derived from Brazilian Portuguese reports using NLP.

chest x-ray artificial intelligence dataset

Published: June 17, 2022. Version: 1.1.0

Database Credentialed Access

eICU Collaborative Research Database

Tom Pollard, Alistair Johnson, Jesse Raffa, Leo Anthony Celi, Omar Badawi, Roger Mark

Multi-center database comprising deidentified health data associated with over 200,000 admissions to ICUs across the United States between 2014-2015.

telemedicine icu critical care

Published: April 15, 2019. Version: 2.0

Latest Resources

Database Open Access

Patient-level dataset to study the effect of COVID-19 in people with Multiple Sclerosis

Hamza Khan, Lotte Geys, peer baneke, Giancarlo Comi, Liesbet Peeters

This dataset is part of the Global Data Sharing Initiative. The data was acquired by people with MS and clinicians using a fast data entry tool. The dataset includes demographics, comorbidities and hospital stay and COVID-19 symptoms of PwMS.

Published: May 30, 2023. Version: 1.0.0

Database Open Access

Facial and oral temperature data from a large set of human subject volunteers

Quanzeng Wang, Yangling Zhou, Pejman Ghassemi, Dwith Chenna, Michelle Chen, Jon Casamento, Joshua Pfefer, David Mcbride

Data for each subject include temperatures measured at 29 facial locations over four rounds with two IRTs, oral temperatures measured with a thermometer in two modes, subject demographics (gender, age, ethnicity), environmental conditions, etc.

clinical accuracy receiver operating characteristic curve infectious disease epidemics thermography fever screening thermometry inner canthus elevated body temperature facial maximum temperatures infrared thermograph pearson correlation coefficients

Published: May 24, 2023. Version: 1.0.0

Database Open Access

BIG IDEAs Lab Glycemic Variability and Wearable Device Data

Peter Cho, Juseong Kim, Brinnae Bent, Jessilyn Dunn

Glucose measurements and wrist-worn wearable sensor data from highnormoglycemic participants.

biomedical engineering biomarkers pre-diabetes

Published: May 11, 2023. Version: 1.1.1

Challenge Credentialed Access

MIT Critical Datathon 2023: a MIMIC-IV Derived Dataset for Pulse Oximetry Correction Models

João Matos, Tristan Struja, David S Restrepo, Luis Filipe Nakayama, Jack Gallifant, Luca Weishaupt, Nikita Mullangi, Maria Loureiro, Skyler Shapiro, Adrien Carrel, Leo Anthony Celi

A SaO2-SpO2 Pairs Dataset derived from MIMIC-IV

machine learning pulse oximetry health equity

Published: May 8, 2023. Version: 1.0.0

Model Credentialed Access

Medical AI Research Foundations: A repository of medical foundation models

Shekoofeh Azizi, Jan Freyberg, Laura Culp, Patricia MacWilliams, Sara Mahdavi, Vivek Natarajan, Alan Karthikesalingam

Medical AI Research Foundations is a repository of medical foundation models.

Published: April 25, 2023. Version: 1.0.0

Software Open Access

PhysioTag: An Open-Source Platform for Collaborative Annotation of Physiological Waveforms

Lucas McCullum, Benjamin Moody, Hasan Saeed, Tom Pollard, Xavier Borrat Frigola, Li-wei Lehman, Roger Mark

Platform for collaborative and interactive annotation of physiological waveform data.

annotation

Published: April 25, 2023. Version: 1.0.0

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News

Google Health collaborate with PhysioNet to release open-source medical foundation models

April 25, 2023

We are excited to announce the release of Medical AI Research Foundations — a repository of open-source medical foundation models and a collaboration between Google Health and PhysioNet. Our goal in releasing this collection of resources is to accelerate medical AI research and to democratize access to foundational medical AI models.

We are seeding Medical AI Research Foundations with REMEDIS models for chest X-ray and pathology (with related Github code). We expect to add more models and resources for training medical foundation models such as datasets and benchmarks in the future. We also welcome contributions from the medical AI research community.

Responsible use of MIMIC data with online services like GPT

April 18, 2023

We have received inquiries regarding the use of credentialed data (MIMIC-III, MIMIC-IV, MIMIC-CXR) with online services such as GPT. The PhysioNet Credentialed Data Use Agreement explicitly prohibits sharing access to the data with third parties, including sending it through APIs provided by companies like OpenAI, or using it in online platforms like ChatGPT.

If you are interested in using the GPT family of models, we recommend enrolling in the Azure OpenAI service. You'll need to opt out of human review of the data, as (1) you are processing sensitive data where the likelihood of harmful outputs and/or misuse is low, and (2) you do not have the right to permit Microsoft to process the data for abuse detection due to the data use agreement you have signed. The form for opting out of the review process is available here: https://aka.ms/oai/additionalusecase

If you have any questions about this policy, feel free to reach out: https://physionet.org/about/#contact_us

Opportunity to join the KCL EnPRO Lab on a music-physiology data science PhD scholarship

April 17, 2023

The EnPRO Lab in the Department of Engineering and School of Biomedical Engineering & Imaging Sciences at King's College London is looking to fill a music-physiology data science doctoral scholarship which is now open to international applicants for October 2023 entry. The successful applicant will join the research team of the ERC COSMOS project (cosmos.isd.kcl.ac.uk).

The research investigates the impact of music expressivity on the autonomic nervous system. The project focuses on developing individualized, explanatory computational models for modulating autonomic responses through music that can be used in digital therapeutics for cardiovascular health. The scientific approach will be based on studying the interactions between musical prosody (acoustic variations introduced in musical communication) and autonomic parameters such as heart rate, heart rate variability, respiration, and blood pressure. The methods build on software tools developed in the COSMOS project.

The research activities will include study design, ethics application, data collection, data processing, computational modelling, and analysis and interpretation of results, and disseminating results through publications and conference presentations. The ideal candidate will be knowledgeable in Python, Matlab, or R, and have a Bachelors or Masters degree in biomedical engineering, mathematical and computational sciences, music information research, or a related discipline. Experience in analysis of biosignals and/or music signals, or industrial experience is desirable.

Funding is available for 3.5 years, covers fees and stipend, and standard computing/travel support. For further details, please see the job posting.

Competition announced: Detecting Parkinson's freezing of gait using wearable sensor data

March 28, 2023

An estimated 7 to 10 million people around the world have Parkinson’s disease, many of whom suffer from freezing of gait (FOG). FOG are unpredictable, unexpected, involuntary episodic events. During a FOG episode, patients report that their feet are inexplicably “glued” to the ground, preventing them from moving forward despite their attempts.

PhysioNet contributor Jeff Hausdorff and his colleagues at the Tel Aviv Sourasky Medical Center, KU Leuven, and Harvard Medical School, have contributed a large dataset to a machine learning contest that was recently launched to automatically detect FOG episodes and to address the shortcomings of existing methods.

This work has the potential to help advance the evaluation, understanding, and treatment of FOG, and, ultimately, to improve the lives of the many people who suffer from this debilitating Parkinson’s disease symptom. To join the competition, visit Kaggle.

Timeline

June 1, 2023: Entry Deadline. You must accept the competition rules before this date in order to compete.
June 1, 2023: Team Merger Deadline. This is the last day participants may join or merge teams.
June 8, 2023: Final Submission Deadline.

Prizes

1st Place: $40,000
2nd Place: $25,000
3rd Place: $20,000
4th Place: $10,000
5th Place: $5,000

Toronto Health Datathon (23-24 February 2023)

March 10, 2023

Over 45 students, academics, clinicians, and engineers gathered at the Google Canada offices on 23-24 February for the Toronto Health Datathon 2023. Participants used anonymized real-world data from Health Data Nexus to develop machine learning models aimed at solving real-world problems facing Canadian healthcare.

Over the past two years, PhysioNet has been collaborating with Temerty Centre for Artificial Intelligence Research and Education in Medicine (T-CAIREM) at the University of Toronto to develop the software that underpins both Health Data Nexus and PhysioNet. We look forward to continuing this collaboration, working towards tight integration between the two platforms.

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