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Unfortunately, the extent to which biologists can take advantage of these modeling techniques is limited by the computational complexity of gene regulatory network simulation algorithms. This study presents a new platform-independent, grid-based distributed computing environment that accelerates biological model simulation and, ultimately, development. Applying this environment to gene regulatory network simulation shows a significant reduction in execution time versus running simulation jobs locally. To analyze this improvement, a performance model of the distributed computing environment is built. Although this grid-based system was specifically developed for biological simulation, the techniques discussed are applicable to a variety of simulation performance problems.<\/jats:p>","DOI":"10.1177\/0037549704045051","type":"journal-article","created":{"date-parts":[[2004,9,13]],"date-time":"2004-09-13T20:00:29Z","timestamp":1095105629000},"page":"231-241","source":"Crossref","is-referenced-by-count":7,"title":["Accelerating Gene Regulatory Network Modeling Using Grid-Based Simulation"],"prefix":"10.1177","volume":"80","author":[{"given":"James M.","family":"McCollum","sequence":"first","affiliation":[{"name":"Department of Electrical and Computer Engineering University of                         Tennessee-Knoxville,"}]},{"given":"Gregory D.","family":"Peterson","sequence":"additional","affiliation":[{"name":"Department of Electrical and Computer Engineering, University of Tennessee-Knoxville"}]},{"given":"Chris D.","family":"Cox","sequence":"additional","affiliation":[{"name":"Department of Civil and Environmental Engineering, Center for                         Environmental Biotechnology, University of Tennessee-Knoxville"}]},{"given":"Michael L.","family":"Simpson","sequence":"additional","affiliation":[{"name":"Molecular Scale Engineering and Nanoscale Technologies Research Group,                         Oak Ridge National Laboratory, Department of Material Science and                         Engineering, Center for Environmental Biotechnology, University of Tennessee-Knoxville"}]}],"member":"179","published-online":{"date-parts":[[2004,5,1]]},"reference":[{"key":"atypb1","doi-asserted-by":"publisher","DOI":"10.1177\/109434209701100304"},{"key":"atypb2","doi-asserted-by":"publisher","DOI":"10.1002\/0470867167.ch11"},{"key":"atypb3","volume-title":"The grid: Blueprint for a new computing infrastructure","author":"Foster, I.","year":"1999"},{"key":"atypb4","doi-asserted-by":"publisher","DOI":"10.1006\/bulm.1999.0155"},{"key":"atypb5","doi-asserted-by":"publisher","DOI":"10.1016\/S0301-4622(98)00132-X"},{"key":"atypb6","doi-asserted-by":"publisher","DOI":"10.1006\/jtbi.1993.1179"},{"key":"atypb7","doi-asserted-by":"publisher","DOI":"10.1073\/pnas.0235349100"},{"key":"atypb8","doi-asserted-by":"crossref","first-page":"1633","DOI":"10.1093\/genetics\/149.4.1633","volume":"149","author":"Arkin, A.","year":"1998","journal-title":"Genetics"},{"key":"atypb9","doi-asserted-by":"publisher","DOI":"10.1002\/(SICI)1097-0290(19970720)55:2<375::AID-BIT15>3.0.CO;2-G"},{"key":"atypb10","doi-asserted-by":"publisher","DOI":"10.1021\/j100540a008"},{"key":"atypb11","doi-asserted-by":"publisher","DOI":"10.1021\/jp993732q"},{"key":"atypb12","doi-asserted-by":"publisher","DOI":"10.1089\/153623103322452422"},{"key":"atypb13","doi-asserted-by":"publisher","DOI":"10.1063\/1.1378322"},{"key":"atypb14","doi-asserted-by":"publisher","DOI":"10.1038\/35053181"},{"key":"atypb15","volume-title":"Proceedings of the 14th IASTED International Conference on Parallel and Distributed Computing and Systems","author":"Lehrter, J. 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