OREGON STATE UNIVERSITY
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| Title | Dizzy: stochastic simulation of large-scale genetic regulatory networks. |
| Publication Type | Journal Article |
| Year of Publication | 2005 |
| Authors | Ramsey, SA, Orrell, D, Bolouri, H |
| Journal | J Bioinform Comput Biol |
| Volume | 3 |
| Issue | 2 |
| Pagination | 415-36 |
| Date Published | 2005 Apr |
| ISSN | 0219-7200 |
| Keywords | Algorithms, Cell Physiological Phenomena, Computer Simulation, Gene Expression Regulation, Kinetics, Models, Biological, Models, Statistical, Multienzyme Complexes, Proteins, Signal Transduction, Software, Stochastic Processes, User-Computer Interface |
| Abstract | We describe Dizzy, a software tool for stochastically and deterministically modeling the spatially homogeneous kinetics of integrated large-scale genetic, metabolic, and signaling networks. Notable features include a modular simulation framework, reusable modeling elements, complex kinetic rate laws, multi-step reaction processes, steady-state noise estimation, and spatial compartmentalization. |
| DOI | 10.1142/s0219720005001132 |
| Alternate Journal | J Bioinform Comput Biol |
| PubMed ID | 15852513 |
| Grant List | 10830302 / / PHS HHS / United States |