![Page 1: National Institute of General Medical Sciences National Institute of Biomedical Imaging and Bioengineering An introduction to PhysioNet the research resource](https://reader036.vdocuments.net/reader036/viewer/2022062715/56649d7a5503460f94a5e768/html5/thumbnails/1.jpg)
National Institute of General Medical Sciences
National Institute of Biomedical Imaging and Bioengineering
An introduction to
PhysioNetthe research resource for
complex physiologic signals
![Page 2: National Institute of General Medical Sciences National Institute of Biomedical Imaging and Bioengineering An introduction to PhysioNet the research resource](https://reader036.vdocuments.net/reader036/viewer/2022062715/56649d7a5503460f94a5e768/html5/thumbnails/2.jpg)
A unique web-based resource funded by NIH, intended to support current research and stimulate new investigations in the study of complex biomedical and physiologic signals.
Three closely interdependent components: Data repository ( (PhysioBank) Library of related software ( (PhysioToolkit) Free-access website ( (physionet.org)
What is PhysioNet?
![Page 3: National Institute of General Medical Sciences National Institute of Biomedical Imaging and Bioengineering An introduction to PhysioNet the research resource](https://reader036.vdocuments.net/reader036/viewer/2022062715/56649d7a5503460f94a5e768/html5/thumbnails/3.jpg)
Why Study Signals?
Physiologic signals and time series reveal aspects of health, disease, biotoxicity and aging not captured by static measures.
Raw (original) signals are of increasing interest as means of developing new biomarkers, of measuring parameters of known interest, and also for developing new insights into basic mechanisms of human physiology.
![Page 4: National Institute of General Medical Sciences National Institute of Biomedical Imaging and Bioengineering An introduction to PhysioNet the research resource](https://reader036.vdocuments.net/reader036/viewer/2022062715/56649d7a5503460f94a5e768/html5/thumbnails/4.jpg)
Resource Established September,1999
Founded under auspices of NCRR (1999-2007). Now supported by NIBIB and NIGMS (2007-2012) under Cooperative Agreement U01EB008577
![Page 5: National Institute of General Medical Sciences National Institute of Biomedical Imaging and Bioengineering An introduction to PhysioNet the research resource](https://reader036.vdocuments.net/reader036/viewer/2022062715/56649d7a5503460f94a5e768/html5/thumbnails/5.jpg)
Design of the PhysioNet Website
PhysioToolkitPhysioToolkitOpen Source Open Source
SoftwareSoftwareFor Data AnalysisFor Data Analysis
PhysioNetPhysioNetGateway to the Gateway to the
ResourceResource
PhysioBankPhysioBankArchive of Archive of
Physiologic Signals Physiologic Signals and Time Seriesand Time Series
Scientific Community-at-LargeScientific Community-at-Large
![Page 6: National Institute of General Medical Sciences National Institute of Biomedical Imaging and Bioengineering An introduction to PhysioNet the research resource](https://reader036.vdocuments.net/reader036/viewer/2022062715/56649d7a5503460f94a5e768/html5/thumbnails/6.jpg)
PhysioBank currently includes:
>40 collections of cardiopulmonary, neural, and other biomedical signals from healthy subjects and patients with a variety of conditions with major public health implications, including sudden cardiac death, congestive heart failure, epilepsy, gait disorders, sleep apnea, and aging.
What is PhysioBank?
![Page 7: National Institute of General Medical Sciences National Institute of Biomedical Imaging and Bioengineering An introduction to PhysioNet the research resource](https://reader036.vdocuments.net/reader036/viewer/2022062715/56649d7a5503460f94a5e768/html5/thumbnails/7.jpg)
Where Do the Data Collections Come From?
PhysioNet research team members Other university-based research teams Other hospital-based research teams Industry
![Page 8: National Institute of General Medical Sciences National Institute of Biomedical Imaging and Bioengineering An introduction to PhysioNet the research resource](https://reader036.vdocuments.net/reader036/viewer/2022062715/56649d7a5503460f94a5e768/html5/thumbnails/8.jpg)
Where Do the Data Collections Come From?
PhysioNet research team members Other university-based research teams Other hospital-based research teams Industry You! (email [email protected])
![Page 9: National Institute of General Medical Sciences National Institute of Biomedical Imaging and Bioengineering An introduction to PhysioNet the research resource](https://reader036.vdocuments.net/reader036/viewer/2022062715/56649d7a5503460f94a5e768/html5/thumbnails/9.jpg)
Physiologic time series, such as this series of cardiac interbeat (RR) intervals measured over 24 hours, can capture some of the information lost in summary statistics.
Data from the NHLBI Cardiac Arrhythmia Suppression Trial (CAST) RR Interval Sub-study Database
Example of a PhysioBank Dataset
Time (hours)
RR
inte
rval
(se
con
ds)
Record e001a
Time (hours)
RR
inte
rval
(se
con
ds)
Record e001a
![Page 10: National Institute of General Medical Sciences National Institute of Biomedical Imaging and Bioengineering An introduction to PhysioNet the research resource](https://reader036.vdocuments.net/reader036/viewer/2022062715/56649d7a5503460f94a5e768/html5/thumbnails/10.jpg)
Many data collections inPhysioBank come frompublished studies
Hausdorff et al., J Appl Physiol 86(3)1040-7 (1999)
Another PhysioBank Dataset
![Page 11: National Institute of General Medical Sciences National Institute of Biomedical Imaging and Bioengineering An introduction to PhysioNet the research resource](https://reader036.vdocuments.net/reader036/viewer/2022062715/56649d7a5503460f94a5e768/html5/thumbnails/11.jpg)
Chart-O-Matic allows you to view "chart recording" samples of any PhysioBank record. The web application requires no client-side software other than a web browser.
Viewing PhysioBank Data
![Page 12: National Institute of General Medical Sciences National Institute of Biomedical Imaging and Bioengineering An introduction to PhysioNet the research resource](https://reader036.vdocuments.net/reader036/viewer/2022062715/56649d7a5503460f94a5e768/html5/thumbnails/12.jpg)
What Can You Do with PhysioBank Data?
Download for exploration and research Develop new signal processing algorithms Evaluate algorithms using ‘standard’ data Test physiologic models Develop/test/refine new biomarkers Create “real-world” classroom challenges at
undergraduate, graduate and post-graduate levels
![Page 13: National Institute of General Medical Sciences National Institute of Biomedical Imaging and Bioengineering An introduction to PhysioNet the research resource](https://reader036.vdocuments.net/reader036/viewer/2022062715/56649d7a5503460f94a5e768/html5/thumbnails/13.jpg)
What is PhysioToolkit?
Open-source software for physiologic signal processing and analysis:
Detection of physiologically significant events using both classical techniques and novel methods
Interactive display & characterization of signals; creation of new databases
Physiologic signal modelling and for quantitative evaluation and comparison of analysis methods
![Page 14: National Institute of General Medical Sciences National Institute of Biomedical Imaging and Bioengineering An introduction to PhysioNet the research resource](https://reader036.vdocuments.net/reader036/viewer/2022062715/56649d7a5503460f94a5e768/html5/thumbnails/14.jpg)
Where Does the Open-Source Software Come From?
PhysioNet research team members Contributions from individuals and teams
around the world PhysioNet/Computers in Cardiology annual
Challenges
![Page 15: National Institute of General Medical Sciences National Institute of Biomedical Imaging and Bioengineering An introduction to PhysioNet the research resource](https://reader036.vdocuments.net/reader036/viewer/2022062715/56649d7a5503460f94a5e768/html5/thumbnails/15.jpg)
Where Does the Open-Source Software Come From?
PhysioNet research team members Contributions from individuals and teams
around the world PhysioNet/Computers in Cardiology annual
Challenges You! (email [email protected])
![Page 16: National Institute of General Medical Sciences National Institute of Biomedical Imaging and Bioengineering An introduction to PhysioNet the research resource](https://reader036.vdocuments.net/reader036/viewer/2022062715/56649d7a5503460f94a5e768/html5/thumbnails/16.jpg)
Projects requiring largeamounts of data can process them efficiently using WFDB software.
The WFDB library reads and writes annotations and signals in many commonly-used binary formats, providing uniform access to data from local disks and from the web.
Open Source Tools: WFDB Software
![Page 17: National Institute of General Medical Sciences National Institute of Biomedical Imaging and Bioengineering An introduction to PhysioNet the research resource](https://reader036.vdocuments.net/reader036/viewer/2022062715/56649d7a5503460f94a5e768/html5/thumbnails/17.jpg)
Some PhysioNet Contributions Include Both Data and Software
SoftwareData
Manuscript
![Page 18: National Institute of General Medical Sciences National Institute of Biomedical Imaging and Bioengineering An introduction to PhysioNet the research resource](https://reader036.vdocuments.net/reader036/viewer/2022062715/56649d7a5503460f94a5e768/html5/thumbnails/18.jpg)
More Contributions with Data & Software
Software
Data
Manuscript
![Page 19: National Institute of General Medical Sciences National Institute of Biomedical Imaging and Bioengineering An introduction to PhysioNet the research resource](https://reader036.vdocuments.net/reader036/viewer/2022062715/56649d7a5503460f94a5e768/html5/thumbnails/19.jpg)
PhysioNet Provides Tutorials on Complex Signal Analysis
Downloads since 2004: MSE code 4,208; MSE tutorial 7,432Method featured in Nature News and Views 2002; 419:263.
![Page 20: National Institute of General Medical Sciences National Institute of Biomedical Imaging and Bioengineering An introduction to PhysioNet the research resource](https://reader036.vdocuments.net/reader036/viewer/2022062715/56649d7a5503460f94a5e768/html5/thumbnails/20.jpg)
Common infrastructures for clinical research Complex biological systems Computational biology and informatics New interdisciplinary, translational research teams
PhysioNet Fosters Key NIH Priorities
![Page 21: National Institute of General Medical Sciences National Institute of Biomedical Imaging and Bioengineering An introduction to PhysioNet the research resource](https://reader036.vdocuments.net/reader036/viewer/2022062715/56649d7a5503460f94a5e768/html5/thumbnails/21.jpg)
Who Uses PhysioNet / Where?
>30,000 researchers, students, manufacturers, educators, each month
From all 50 US states and DC Users from >100 other countries
![Page 22: National Institute of General Medical Sciences National Institute of Biomedical Imaging and Bioengineering An introduction to PhysioNet the research resource](https://reader036.vdocuments.net/reader036/viewer/2022062715/56649d7a5503460f94a5e768/html5/thumbnails/22.jpg)
Research by PhysioNet Team
Three Broad Goals:
Relating complex dynamics of physiologic time series to underlying mechanisms in health, disease, and aging
Developing diagnostic and prognostic biomarkers of complex dynamics that quantify control system functions and pathologies
Detecting and forecasting major events, such as seizures, sudden cardiac arrest, falls, hemodynamic collapse, and apneas, and generating hypotheses about their mechanisms
![Page 23: National Institute of General Medical Sciences National Institute of Biomedical Imaging and Bioengineering An introduction to PhysioNet the research resource](https://reader036.vdocuments.net/reader036/viewer/2022062715/56649d7a5503460f94a5e768/html5/thumbnails/23.jpg)
Assessing PhysioNet’s Impact
Extensive publications by key personnel
Extensive publications by others based on Resource (>400)
Contributions to basic mechanisms/clinical medicine
Technology transfer
![Page 24: National Institute of General Medical Sciences National Institute of Biomedical Imaging and Bioengineering An introduction to PhysioNet the research resource](https://reader036.vdocuments.net/reader036/viewer/2022062715/56649d7a5503460f94a5e768/html5/thumbnails/24.jpg)
PhysioNet Impact (continued)
International collaborations
Incubator for NIH grant development & support
NIH-wide influence: model for data/software sharing & multidisciplinary translational research
Educational support: PhysioNet in the Classroom
![Page 25: National Institute of General Medical Sciences National Institute of Biomedical Imaging and Bioengineering An introduction to PhysioNet the research resource](https://reader036.vdocuments.net/reader036/viewer/2022062715/56649d7a5503460f94a5e768/html5/thumbnails/25.jpg)
PhysioNet in the Classroom
Increasing use of PhysioNet in undergraduate and graduate level courses in bioengineering and other disciplines
Example: “Gait Module for Freshman-Level Introductory Course in Biomedical Engineering”*
Part of challenge-based approach developed by University of Memphis in partnership with Vanderbilt-Northwestern-Texas-Harvard/MIT Engineering Research Center (VaNTH ERC)
*See: Proc 2005 Am Soc Eng Education Ann Conf
![Page 26: National Institute of General Medical Sciences National Institute of Biomedical Imaging and Bioengineering An introduction to PhysioNet the research resource](https://reader036.vdocuments.net/reader036/viewer/2022062715/56649d7a5503460f94a5e768/html5/thumbnails/26.jpg)
Unofficial Metric of PhysioNet’s Use
![Page 27: National Institute of General Medical Sciences National Institute of Biomedical Imaging and Bioengineering An introduction to PhysioNet the research resource](https://reader036.vdocuments.net/reader036/viewer/2022062715/56649d7a5503460f94a5e768/html5/thumbnails/27.jpg)
World-wide Network of Mirror Sites
Boston San Antonio Brazil Israel Italy Moscow Slovenia Spain
Provide distributed access and backup to PhysioNet Established and maintained by volunteers at no cost to the
Resource Setup is easy; open source software; upkeep is automated
![Page 28: National Institute of General Medical Sciences National Institute of Biomedical Imaging and Bioengineering An introduction to PhysioNet the research resource](https://reader036.vdocuments.net/reader036/viewer/2022062715/56649d7a5503460f94a5e768/html5/thumbnails/28.jpg)
With the annual Computers in Cardiology conference, PhysioNet hosts challenges, inviting participants to tackle important problems: Detecting Sleep Apnea from the ECG Predicting Paroxysmal Atrial Fibrillation RR Interval Time Series Modeling Distinguishing Ischemic from Non-Ischemic ST Changes Spontaneous Termination of Atrial Fibrillation QT Interval Measurement ECG Imaging of Myocardial Infarction
Another PhysioNet Innovation: International Time Series Challenges
![Page 29: National Institute of General Medical Sciences National Institute of Biomedical Imaging and Bioengineering An introduction to PhysioNet the research resource](https://reader036.vdocuments.net/reader036/viewer/2022062715/56649d7a5503460f94a5e768/html5/thumbnails/29.jpg)
Getting Started: Take PhysioTour!
> 750,000 visitors!
![Page 30: National Institute of General Medical Sciences National Institute of Biomedical Imaging and Bioengineering An introduction to PhysioNet the research resource](https://reader036.vdocuments.net/reader036/viewer/2022062715/56649d7a5503460f94a5e768/html5/thumbnails/30.jpg)
PhysioNet: Looking Ahead
New database and software additions New infrastructures for database
development and data sharing (PhysioNet Works)
New PhysioNet/Computers in Cardiology Challenge
Multiscale analysis & modelling Development of new dynamical
biomarkers
![Page 31: National Institute of General Medical Sciences National Institute of Biomedical Imaging and Bioengineering An introduction to PhysioNet the research resource](https://reader036.vdocuments.net/reader036/viewer/2022062715/56649d7a5503460f94a5e768/html5/thumbnails/31.jpg)
Faces of PhysioNet
1 4
1-George Moody2-Roger Mark3-Gari Clifford4-Mohammed Saeed5-Mauricio Villarroel6-C-K Peng7-Madalena Costa8-Joe Mietus9-Ary Goldberger
7 96 8
5