Sept. 8, 2022
We are pleased to announce the publication of a dataset comprising multimodal physiologic, flight performance, and user interaction data streams, collected as participants performed virtual-reality flight tasks of varying difficulty.
With over an hour of highly multimodal physiological and behavioral signals collected on each of the thirty-five participants, the dataset represents a unique opportunity to develop analytics and models linking an individual’s physiology to their behavior and performance in tasks of varying difficulty.
More data are being collected and will be uploaded to PhysioNet periodically. The data underpins the CogPilot Data Challenge, which explores how performance measurements and physiological data can be used to assess the competency of student pilots. To participate in the CogPilot Challenge, visit: https://pilotperformance.mit.edu/
News from: MIMIC-IV Waveform Database v0.1.0.
Aug. 9, 2022
We are pleased to announce an initial release of a version (0.1.0) of the MIMIC-IV-Waveform module. These waveforms are a rich source of patient information - including ECG, PPG, and Blood Pressure signals - and can be linked to the clinical information in MIMIC-IV. This initial release contains 200 records from 198 patients. An upcoming release will include around 10,000 records.
The dataset was the subject of a workshop at IEEE EMBC in July of 2022, led by Peter Charlton, which demonstrated how to use the WFDB-Python package to extract and analyze waveform features. Executable notebooks and tutorial materials are available at: https://mimic.mit.edu/docs/iv/tutorials/waveform/ieee_workshop/ .
July 29, 2022
Gari Clifford and Matthew Reyna from Emory University and Elaine Nsoesie from Boston University recently published an invited viewpoint in The Journal of the American Medical Association on "Rethinking Algorithm Performance Metrics for Artificial Intelligence in Diagnostic Medicine". The viewpoint focuses on how we often use the wrong optimization targets when applying machine learning to medical data, and how we can address this issue, and is part of the Gordon and Betty Moore Foundation's broader series on Diagnostic Excellence.
July 17, 2022
Our servers at MIT are undergoing and testing and maintenance work between Friday 15th and Monday 18th July 2022. PhysioNet (https://physionet.org/) will remain active during this period, but some services may be affected (for example, the archive website https://archive.physionet.org/).
June 30, 2022
Linking an ORCID to your PhysioNet profile can help us to quickly verify your identity, speeding up the process of gaining access to datasets such as MIMIC.
When reviewing an ORCID profile, we look out for “Trust Markers” which are pieces of information added to the profile by groups such publishers and employers.
To find out more about how PhysioNet is working with ORCID, see their blog post on how we are using the Trust Markers to streamline the data credentialing process.
April 7, 2022
We are currently dealing with a high volume of applications for credentialed access to PhysioNet, so please expect significant delays (up to 45 days) in the review process. We are doing our best to deal with the waitlist quickly, handling applications in the order in which they are received. To help ensure that your application is successful, please remember to:
- Include a copy of your CITI training report (not the certificate).
- Remind your reference to reply promptly when contacted.
- Check your application details are correct before submitting.
- Add an institutional or educational email address as your primary email.
We apologize for the inconvenience. Please bear with us during this busy time!
March 31, 2022
Between Wednesday 30 March and Thursday 31 March the PhysioNet mail server suffered an interruption. As a result, if you attempted to register for a new account or reset a password, you may not have received an email.
We are now in the process of resending emails, so please check your mailbox if an expected email did not arrive. We apologize for the inconvenience and we will be taking steps to prevent similar issues issue in the future.
March 18, 2022
Applying for access to protected datasets such as MIMIC is now a three step process:
- Submit your personal details via the "Credentialing" page of your user profile.
- Submit your training report via the "Training" page of your user profile.
- Once the steps above are complete, sign the Data Use Agreement in the "Files" section of the relevant project. You can view your signed agreements on the "Agreements" page of your user profile.
The change helps us to review data access requests more efficiently and gives us the flexibility to support additional training courses in future.
Feb. 28, 2022
When applying for access to datasets such as MIMIC, you are currently required to submit a single "credentialing" application that allows us to check both CITI training status and identity.
We will soon be releasing updates to PhysioNet that will require training and identity details to be submitted independently. As a result, a new "Training" tab will be added to your user profile.
This change will allow us to support different types of training for different datasets (for example, an Australian dataset may require training on specific issues relating to Australia). The change will also help us to streamline the review process.
Jan. 31, 2022
We have two big announcements today. First, at last year’s Computing in Cardiology (CinC) Conference, the Board voted to rename the PhysioNet/Computing in Cardiology Challenges in honor of George Moody, and his life-long contributions to the field, and specifically PhysioNet, the Challenges and CinC. The Challenge is now called the “The George B. Moody PhysioNet Challenge”. For consistency, we will still abbreviate this to the PhysioNet Challenge. We continue to partner with CinC, and will be awarding prizes in Finland in September this year.
Second, we are delighted to also announce the opening of the George B. Moody PhysioNet Challenge 2022. This year’s Challenge aims to identify the presence, absence, or unclear cases of murmur waves in heart sound recordings collected from multiple auscultation locations on the body using a digital stethoscope. Building on our successful Challenge from 2016, together with our generous collaborators at the Universidade Portucalense and Universidade do Porto, we have sourced a database of 5272 recordings from 1568 inhabitants of Pernambuco state, Brazil during two independent cardiac screening campaigns which were designed to support the development of a telemedicine network. More details on the data can be found in a recent publication in the IEEE Journal of Biomedical and Health Informatics.
Demo code in Python and MATLAB is available, and the scoring system will be open later in February - Look out for the announcement very soon!
See here for more information, rules and deadlines: https://moody-challenge.physionet.org/2022/
As with previous years, we have divided the Challenge into two phases. The first (unofficial phase) is to enable the research community (i.e. you) to help us improve the Challenge. We value your input, and it is therefore compulsory to enter the Challenge in this unofficial phase (before 9th April) to be eligible for a prize. This is very important - we need your help! Please enter early and often - the score doesn’t matter and will be wiped from the board for the official phase. We need you to look for quirks in our scoring system, data formats, or anomalies in the raw data that do not make sense to you. We are not perfect, and are bandwidth-limited, and so we rely on the peer-review of our community to improve the quality of the Challenge every year. In particular, this year we strongly encourage suggestions for modifying our scoring function, which we are sure will be controversial.
Please note that you *must* re-register for this Challenge (using the link below) even if you competed last year and have no team changes, and to be eligible for a prize, you must submit at least one successful entry during the unofficial phase.
Quick links for this year's Challenge:
More information will be posted on the PhysioNet Challenge website as it is available. Please check the Challenge forum for real-time updates. Please also post questions and comments in the forum. However, if your question reveals information about your entry, then please email Info [at] physionetchallenge.org. We may post parts of our reply publicly if we feel that all Challengers should benefit from the information contained in our responses. We will not answer emails about the Challenge sent to other email addresses.
Many thanks again for your continued support of this event, and we hope that you enjoy the 2022 Challenge
-Gari, Matt, Ali and the PhysioNet Challenge Team
Jan. 26, 2022
January 26, 2022: Both the 2020 Challenge and the 2021 Challenge, which extended the 2020 Challenge, are now complete. The CinC articles for both Challenges are available on the CinC website here and here. The final scores can be found here. Please cite Perez Alday EA, Gu A, J Shah A, Robichaux C, Ian Wong AK, Liu C, Liu F, Bahrami Rad A, Elola A, Seyedi S, Li Q, Sharma A, Clifford GD* Reyna MA*. Classification of 12-lead ECGs: The PhysioNet/Computing in Cardiology Challenge 2020. Physiol. Meas. 2021 Jan 1;41(12):124003. doi: 10.1088/1361-6579/abc960 to refer to the 2020 Challenge. Please also cite Reyna MA, Sadr N, Perez Alday EA, Gu A, Shah AJ, Robichaux C, Rad AB, Elola A, Seyedi S, Ansari S, Ghanbari H, Li Q, Sharma A, Clifford GD. Will Two Do? Varying Dimensions in Electrocardiography: The PhysioNet/Computing in Cardiology Challenge 2021. Computing in Cardiology 2021; 48: 1-4 and Reyna MA, Sadr N, Perez Alday EA, Gu Annie, Shah AJ, Robichaux C, Rad AB, Elola A, Seyedi S, Ansari S, Ghanbari H, Li Q, Sharma A, Clifford GD. Issues in the automated classification of multilead ECGs using heterogeneous labels and populations. Preprint. 2022 to refer to the 2021 Challenge. Finally, please also cite the standard PhysioNet citation. You can find followup articles to the 2020 Challenge and the 2021 Challenge in the Journal of Physiological Measurement Focus Issue on Classification of Multilead ECGs.
Jan. 26, 2022
Jan. 5, 2022
We are pleased to announce publication of BRAX, a Brazilian chest x-ray dataset labelled with 14 radiological findings derived from Portuguese medical reports using NLP. BRAX contains 24,959 chest radiography exams and 40,967 images acquired in a large general Brazilian hospital.
Dr Eduardo Pontes Reis, co-author and Radiologist at Hospital Israelita Albert Einstein, notes the importance of datasets from underrepresented regions for evaluating how well clinical applications of deep learning can generalize to new populations and for reducing the lack of geographic diversity in publicly available chest x-ray data.
Read more: https://doi.org/10.13026/ae9a-f727
Nov. 30, 2021
As a result of an internal audit at the Korea University Medical Center, the authors of the KURIAS-ECG dataset (https://doi.org/10.13026/kga0-0270) have asked for downloads to be disabled until further notice. We apologize for the inconvenience and hope to make the files available again in the future.
Oct. 25, 2021
October 25, 2021: We are currently evaluating entries on the 2021 Challenge test data in support of the Physiological Measurement focus issue on multilead ECG classification. The deadline to submit your code and a preprint is 1 December 2021, and the deadline to submit your article is 11 January 2022. See this forum announcement for details.
Sept. 20, 2021
September 20, 2021: The winners of the 2021 Challenge were announced on 15 September 2021 at CinC in Brno, Czech Republic. Congratulations, teams! See this page for the results and the full announcement for the final steps in this year’s Challenge, including details about the focus issue (deadline: 11 January 2022).
The challenges have been renamed to the George B. Moody PhysioNet Challenge in honor of George Moody
Sept. 15, 2021
September 15, 2021: In honor of the contributions of George Moody to PhysioNet and Computing in Cardiology, the Board of CinC voted to rename the Challenges to the George B. Moody PhysioNet Challenge.
July 21, 2021
July 21, 2021: As you prepare your CinC papers, please follow the CinC preparation and submission instructions and use either our LaTeX (Overleaf or download) or Word templates, which include important instructions, advice, and references. Please see here for more information, including our draft paper and important citation information.
June 28, 2021
We are pleased to announce that a 100-patient demo of MIMIC-IV has been made available in the OMOP Common Data Model. The dataset is currently undergoing user testing and has known limitations (for example, the inputevents and outputevents tables are not yet incorporated). For more detail, please visit the project page on PhysioNet and the associated GitHub repository.
This work builds on previous efforts by Nicolas Paris, Adrien Parrot and colleagues on MIMIC-III. The project was in part supported by grants from Bill and Melinda Gates foundation and National Library of Medicine (NLM), National Institutes of Health.
Read more: https://doi.org/10.13026/p1f5-7x35
June 25, 2021
An overnight power outage (24-25 June 2021) appears to have resulted in some network issues. Functionality such as integration with external services (e.g. ORCID and Google Cloud) may be affected. We are investigating! [UPDATE: the network has been restored.]