{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,5,4]],"date-time":"2026-05-04T13:41:58Z","timestamp":1777902118461,"version":"3.51.4"},"reference-count":48,"publisher":"SAGE Publications","issue":"12","license":[{"start":{"date-parts":[[2006,12,1]],"date-time":"2006-12-01T00:00:00Z","timestamp":1164931200000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/journals.sagepub.com\/page\/policies\/text-and-data-mining-license"}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":["SIMULATION"],"published-print":{"date-parts":[[2006,12]]},"abstract":"<jats:p>We present a concise, generic, and configurable partitioning approach for decomposable, modular, and multiscale (or hierarchical) constructive models. A generic model partitioning (GMP) algorithm decomposes a given multiscale model to a set of partition blocks based on a cost modeling and analysis method in polynomial time. It minimizes model decompositions and constructs monotonically improved partitioning outcomes during the partitioning process. The cost modeling and analysis method enables translating subjective, domain-specific, and heterogeneous resource information to objective, domain-independent, and homogeneous cost information. By translating models to a homogeneous cost space and describing partitioning logics over the space, the proposed algorithm utilizes domain-specific knowledge to produce the best partitioning results without any modification of its programming logics. As a consequence of its clean separation between domain-specific partitioning requirements and goals, and generic partitioning logic, the proposed algorithm can be applied to a variety of partitioning problems in large-scale systems biology research utilizing distributed and parallel simulation. It is expected that the algorithm improves overall performance and efficiency of in silico experimentation of complex multiscale biological system models.<\/jats:p>","DOI":"10.1177\/0037549706075479","type":"journal-article","created":{"date-parts":[[2007,6,11]],"date-time":"2007-06-11T08:43:36Z","timestamp":1181551416000},"page":"809-826","source":"Crossref","is-referenced-by-count":5,"title":["Cost-based Partitioning for Distributed and Parallel Simulation of                 Decomposable Multiscale Constructive Models"],"prefix":"10.1177","volume":"82","author":[{"given":"Sunwoo","family":"Park","sequence":"first","affiliation":[{"name":"BioSystems Group, Department of Biopharmaceutical Sciences University of                         California, San Francisco 513 Parnassus Ave, San Francisco CA 94143-0446, USA"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"C. Anthony","family":"Hunt","sequence":"additional","affiliation":[{"name":"BioSystems Group, Department of Biopharmaceutical Sciences, and Joint                         Graduate Group in Bioengineering University of California, Berkeley and San                         Francisco 513 Parnassus Ave, San Francisco CA 94143-0446, USA"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Bernard P.","family":"Zeigler","sequence":"additional","affiliation":[{"name":"Department of Electrical and Computer Engineering University of Arizona,                         1230 E. Speedway Blvd Tucson, AZ 85721, USA"}],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"179","published-online":{"date-parts":[[2006,12,1]]},"reference":[{"key":"atypb1","doi-asserted-by":"publisher","DOI":"10.1038\/nature01254"},{"key":"atypb2","first-page":"343","volume":"2","author":"Idekeer, T.","year":"2001","journal-title":"Human Genetics"},{"key":"atypb3","doi-asserted-by":"publisher","DOI":"10.1016\/S0047-6374(02)00164-1"},{"key":"atypb4","volume-title":"Cost-based partitioning for distributed simulation of hierarchical, modular DEVS models","author":"Park, S.","year":"2003"},{"key":"atypb5","volume-title":"Proceedings of the 2005 Agent-Directed Simulation Symposium, Spring Simulation Conference","author":"Park, S."},{"key":"atypb6","volume-title":"Theory of Modeling and Simulation","author":"Zeigler, B.P.","year":"2000","edition":"2"},{"key":"atypb7","volume-title":"Proceedings of the 2000 IEEE International Symposium on Computer-Aided Control System Design","author":"Vangheluwe, H.L."},{"key":"atypb8","volume-title":"Proceedings of the 11th IEEE\/ACM International Symposium on Modeling, Analysis and Simulation of Computer Telecommunications Systems (MASCOTS 2003)","author":"Zeigler, B.P."},{"key":"atypb9","volume-title":"Proceedings of the 2005 DEVS Integrative M&S Symposium, Spring Simulation Conference","author":"Djafarzadeh, R."},{"key":"atypb10","volume-title":"Proceedings of the 2005 DEVS Integrative M&S Symposium, Spring Simulation Conference","author":"Hu, X."},{"key":"atypb11","volume-title":"Proceedings of the 18th European Simulation Multiconference","author":"Biermann, S."},{"key":"atypb12","doi-asserted-by":"publisher","DOI":"10.1007\/978-3-540-32126-2_6"},{"key":"atypb13","volume-title":"Proceedings of the 2004 Advanced Simulation Technologies Conference (ASTC '04) \u2014 High Performance Computing Symposium","author":"Seo, C."},{"key":"atypb14","volume-title":"roceedings of the 2004 Advanced Simulation Technologies Conference (ACTS '04) \u2014 Design, Analysis, and Simulation of Distributed Systems Symposium","author":"Cheon, S."},{"key":"atypb15","doi-asserted-by":"crossref","unstructured":"Pothen, A. 1996. Graph partitioning algorithms with applications to scientific                 computing. In Parallel Numerical Algorithms,                      D. E. Keyes                 ,                      A. Sameh                 , and                      V. Venkatakrishnan                 , eds.                      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