Welcome to the NSR Physiome Project!

   The Physiome.org website, host of the National Simulation Resource for Circulatory Mass Transport and Exchange (NSR Physiome Project), has changed its location and its sponsor: having been supported by multiple institutes at the National Institutes of Health (NIH) for the past four decades at the University of Washington, UW, in Seattle WA, it is now hosted in Washington DC at the NIH/National Institute for Bioimaging and Bioengineering managed by the Interagency Modeling and Analysis Group (IMAG) under the leadership of Grace Peng, PhD, Director.

   A special thanks to Anuj Sharma for the translation of the Physiome.org website to this IMAG wiki site.  The new Physiome site should be very similar to the original one with all the same models and information. The JSim simulation software, physiological modelling tips, best reproducible modeling practices, and all of the JSim models are available for download. Also included for download are many SBML (SBML.org) translations of these models as well as models written in Matlab and fortran. Please browse.

   As this site is active and not just an archive, please send us new models as well as any corrections to models on this site. New models can be sent to one of the contacts listed in the Physiome Contacts/Feedback page. Please see https://www.imagwiki.nibib.nih.gov/physiome/models/modelinginfo for useful information if submitting a new model.

Thank you very much for your time and support,
Jim

James B. Bassingthwaighte, MD, PhD                
email:jbb2@uw.edu
Prof. Bioengineering, Radiology                        
University of Washington
Seattle, WA 

July 12, 2021

The Physiome Project is the worldwide effort of several loosely connected research groups to define the physiome via databasing and the development of integrated quantitative and descriptive modeling. This work will help determine the future of medicine, change the way we think about human physiology, and strengthen the fabric of international scientific collaboration across political allegiances. The physiome.org website is now on the IMAG wiki. The physiomeproject.org website is primarily sponsored by the International Union of Physiological Sciences (IUPS) and is led by Peter Hunter of the University of Auckland, NZ. Both sites offers simulation software and models published in refereed journals that further the aim of integrating every level of human biology into a whole.

The NSR Physiome Project Provides

  • Databasing of information
    • genome, proteome, morphome
    • functional behavior of molecules and biological systems
    • observations of intact cellular systems, organs, and intact organisms
  • Integration and consilience of knowledge
    • schema of interactions (descriptive models)
    • quantitative descriptions of relationship (casual, statistical, mechanistic)
    • computer models of small and large systems
    • parameter sets for different cells, tissues, and species
  • Network access to databases and models
    • platform-independent networked search engines
    • platform-independent web operation of models
    • access to databases from descriptive and computational models

Recent Publications

NSR, the National Simulation Resource at the University of Washington Department of Bioengineering, provides the following tools in support of the Physiome Project:

The JSim Modeling System

Physiological Model and Tutorial Repository

Collaborative modeling and software efforts

Courses in Physiological Systems Modeling

courselogo

  • No courses currently scheduled.
  • Archived course materials are available via the NSR Course Archives.

The Physiome Commission of the International Union of Physiological Sciences, IUPS, provides leadership to the Physiome Project through its satellite and central meetings and through the University of Auckland's IUPS Physiome Website. Please take advantage of the information provided by the IUPS and this website to learn more about the project.

Model development and archiving support at https://www.imagwiki.nibib.nih.gov/physiome provided by the following grants: NIH U01HL122199 Analyzing the Cardiac Power Grid, 09/15/2015 - 05/31/2020, NIH/NIBIB BE08407 Software Integration, JSim and SBW 6/1/09-5/31/13; NIH/NHLBI T15 HL88516-01 Modeling for Heart, Lung and Blood: From Cell to Organ, 4/1/07-3/31/11; NSF BES-0506477 Adaptive Multi-Scale Model Simulation, 8/15/05-7/31/08; NIH/NHLBI R01 HL073598 Core 3: 3D Imaging and Computer Modeling of the Respiratory Tract, 9/1/04-8/31/09; as well as prior support from NIH/NCRR P41 RR01243 Simulation Resource in Circulatory Mass Transport and Exchange, 12/1/1980-11/30/01 and NIH/NIBIB R01 EB001973 JSim: A Simulation Analysis Platform, 3/1/02-2/28/07.