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Simbiome is a curated, online electronic resource that organizes and presents relevant resources for physics-based simulation of biomedical structures and related entities in biology and life sciences.
The NSR Physiome Project
Quantitative Description of the Human Organism
http://www.physiome.org/
| Database or Data Source | |
*The Physiome Project* aims to develop, collect, preserve, and disseminate information and integrated understandings of functional biological systems. *The key elements* of the Project are the databasing of physiological, pharmacological, and pathological information on humans and other organisms and integration through computational modeling. This resource acts as a member of a loose consortium of like-motivated resources providing models and tools for biological research. It has an emphasis on physiooogical transport, electrophysiology and metabolism in the cardiovascular and respiratory systems. "Models" include everything from diagrammatic schema, suggesting relationships among elements composing a system, to fully quantitative, computational models describing the behavior of physiological systems and an organism`s response to environmental change. Each mathematical model is an internally self-consistent summary of available information, and thereby defines a "working hypothesis" about how a system operates. Predictions from such models are subject to test, with new results leading to new models. The behavior of complex biological systems will be gradually revealed through this step-by-step process of building upon and further refining "what is known." *Highlights* of what the Physiome Project currently provides: 1. *JSim* - a freely distributed, downloadable software simulation analysis system for data analysis of physiological and biochemical data using optimization for parameter confidence limits, sensitivity analysis, graphics displays, multiple solvers for ODEs and PDEs. Software is open source for academic usage and soon to be opened for commercial usage as well. 2. *Nearly 300 models* - both elementary teaching models and complex research models are available either to run on the Wiki or for free download as source code and for running under JSim under Linux, MacOSX, or Windows. The JSim source code, with units balanced, is easily translated into other languages, including Matlab, Madonna, Xppaut, etc. | |
| Development Stage | 3 - Beta |
| Keywords | Modeling, Integrative Physiology, Databasing, Computational Biology |
| Contact Information |
Gary Raymond or Jim Bassingthwaighte
garyr@washington.edu or jbb2@washington.edu |
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Number of Current, Active Developers | 7 |
| License | None - no license, public domain |
| Resources with Similar Function | |
| Related Resources | IUPS Physiome Project Search Google |
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This work is licensed under a Creative Commons Attribution 2.5 License.