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Volumn 391, Issue 3, 2008, Pages 276-290

GemCell: A generic platform for modeling multi-cellular biological systems

Author keywords

Biological modeling; Complex systems; Executable modeling; Intercellular behavior; Statecharts

Indexed keywords

CELLS; COMPUTER AIDED DESIGN; DATA STRUCTURES; LARGE SCALE SYSTEMS; SYSTEMS ANALYSIS; USER INTERFACES;

EID: 38649108502     PISSN: 03043975     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.tcs.2007.11.014     Document Type: Article
Times cited : (13)

References (26)
  • 1
    • 84875100163 scopus 로고    scopus 로고
    • J. Barjis, I. Barjis, Formalization of the protein production by means of petri nets, in: International Conference on Information Intelligence and Systems, ICIIS'99, 1999
  • 2
    • 38649100075 scopus 로고    scopus 로고
    • M. Calder, V. Vyshemirsky, D. Gilbert, R. Orton, Analysis of signaling pathways using the prism model checker, in: Proc. Computational Methods in Systems Biology, CMSB'05, 2005, pp. 179-190
  • 3
    • 33747877324 scopus 로고    scopus 로고
    • Biocham: An environment for modeling biological systems and formalizing experimental knowledge
    • Calzone L., Fages F., and Soliman S. Biocham: An environment for modeling biological systems and formalizing experimental knowledge. Bioinformatics 22 14 (2006) 1805-1807
    • (2006) Bioinformatics , vol.22 , Issue.14 , pp. 1805-1807
    • Calzone, L.1    Fages, F.2    Soliman, S.3
  • 4
    • 0242574975 scopus 로고    scopus 로고
    • Toward rigorous comprehension of biological complexity: Modeling, execution, and visualization of thymic t-cell maturation
    • Efroni S., Harel D., and Cohen I.R. Toward rigorous comprehension of biological complexity: Modeling, execution, and visualization of thymic t-cell maturation. Genom. Res. 13 11 (2003) 2485-2497
    • (2003) Genom. Res. , vol.13 , Issue.11 , pp. 2485-2497
    • Efroni, S.1    Harel, D.2    Cohen, I.R.3
  • 5
    • 13844266999 scopus 로고    scopus 로고
    • A formal language for computational systems biology
    • Errampalli D.D., Priami C., and Quaglia P. A formal language for computational systems biology. Omics 8 4 (2004) 370-380
    • (2004) Omics , vol.8 , Issue.4 , pp. 370-380
    • Errampalli, D.D.1    Priami, C.2    Quaglia, P.3
  • 8
    • 0035790856 scopus 로고    scopus 로고
    • N. Kam, I.R. Cohen, D. Harel, The immune system as a reactive system: Modeling t cell activation with statecharts, in: Proc. Visual Languages and Formal Methods, VLFM'01, part of IEEE Symp. on Human-Centric Computing, HCC'01, 2001, pp. 15-22
  • 9
    • 84883592668 scopus 로고    scopus 로고
    • N. Kam, D. Harel, H. Kugler, R. Marelly, A. Pnueli, E.J. Hubbard, M.J. Stern, Formal modeling of c. Elegans development: A scenario-based approach, in: Computational Methods in Systems Biology: First International Workshop, 2602 / 2003, 2003, pp. 4-20
  • 10
    • 0035235039 scopus 로고    scopus 로고
    • Representation and simulation of biochemical processes using the pi-calculus process algebra
    • Regev A., Silverman W., and Shapiro E. Representation and simulation of biochemical processes using the pi-calculus process algebra. Pac. Symp. Biocomput. (2001) 459-470
    • (2001) Pac. Symp. Biocomput. , pp. 459-470
    • Regev, A.1    Silverman, W.2    Shapiro, E.3
  • 11
    • 38649131521 scopus 로고    scopus 로고
    • A. Sadot, J. Fisher, D. Barak, Y. Admanit, M.J. Stern, E.J. Hubbard, D. Harel, Towards verified biological models, IEEE/ACM Trans. Comput. Biology and Bioinformatics (in press)
  • 12
    • 0036333324 scopus 로고    scopus 로고
    • Modeling and computational analysis of egf receptor-mediated cell communication in drosophila oogenesis
    • Shvartsman S.Y., Muratov C.B., and Lauffenburger D.A. Modeling and computational analysis of egf receptor-mediated cell communication in drosophila oogenesis. Development 129 11 (2002) 2577-2589
    • (2002) Development , vol.129 , Issue.11 , pp. 2577-2589
    • Shvartsman, S.Y.1    Muratov, C.B.2    Lauffenburger, D.A.3
  • 13
    • 38649132359 scopus 로고    scopus 로고
    • C. Talcott, D.L. Dill, The pathway logic assistant, in: Proc. Computational Methods in Systems Biology, CMSB'05, 2005, pp. 228-239
  • 14
    • 33846542982 scopus 로고    scopus 로고
    • Emergent dynamics of thymocyte development and lineage determination
    • Efroni S., Harel D., and Cohen I.R. Emergent dynamics of thymocyte development and lineage determination. PLoS Comput. Biol. 3 1 (2007) e13
    • (2007) PLoS Comput. Biol. , vol.3 , Issue.1
    • Efroni, S.1    Harel, D.2    Cohen, I.R.3
  • 15
    • 33746595848 scopus 로고    scopus 로고
    • Key role of local regulation in chemosensing revealed by a new molecular interaction-based modeling method
    • Meier-Schellersheim M., Xu X., Angermann B., Kunkel E.J., Jin T., and Germain R.N. Key role of local regulation in chemosensing revealed by a new molecular interaction-based modeling method. PLoS Comput. Biol. 2 7 (2006) e82
    • (2006) PLoS Comput. Biol. , vol.2 , Issue.7
    • Meier-Schellersheim, M.1    Xu, X.2    Angermann, B.3    Kunkel, E.J.4    Jin, T.5    Germain, R.N.6
  • 17
    • 33744792286 scopus 로고    scopus 로고
    • Analysis of a generic model of eukaryotic cell-cycle regulation
    • Csikasz-Nagy A., Battogtokh D., Chen K.C., Novak B., and Tyson J.J. Analysis of a generic model of eukaryotic cell-cycle regulation. Biophys. J. 90 12 (2006) 4361-4379
    • (2006) Biophys. J. , vol.90 , Issue.12 , pp. 4361-4379
    • Csikasz-Nagy, A.1    Battogtokh, D.2    Chen, K.C.3    Novak, B.4    Tyson, J.J.5
  • 18
    • 0033998889 scopus 로고    scopus 로고
    • Generic modeling of chemotactic based self-wiring of neural networks
    • Segev R., and Ben-Jacob E. Generic modeling of chemotactic based self-wiring of neural networks. Neural Netw. 13 2 (2000) 185-199
    • (2000) Neural Netw. , vol.13 , Issue.2 , pp. 185-199
    • Segev, R.1    Ben-Jacob, E.2
  • 19
    • 7244245762 scopus 로고    scopus 로고
    • Finishing the euchromatic sequence of the human genome
    • International Human Genome Sequencing Consortium. Finishing the euchromatic sequence of the human genome. Nature 431 7011 (2004) 931-945
    • (2004) Nature , vol.431 , Issue.7011 , pp. 931-945
    • International Human Genome Sequencing Consortium1
  • 20
    • 84903474472 scopus 로고    scopus 로고
    • Genetics as explanation: Limits to the human genome project
    • Cohen I.R., and Atlan H. Genetics as explanation: Limits to the human genome project. Encyclopedia Life Sci. (2006)
    • (2006) Encyclopedia Life Sci.
    • Cohen, I.R.1    Atlan, H.2
  • 22
    • 0023365727 scopus 로고
    • Statecharts: A visual formalism for complex systems
    • Harel D. Statecharts: A visual formalism for complex systems. Sci. Comput. Programm. 8 (1987) 231-274
    • (1987) Sci. Comput. Programm. , vol.8 , pp. 231-274
    • Harel, D.1
  • 23
    • 0031187475 scopus 로고    scopus 로고
    • Executable object modeling with statecharts
    • Harel D., and Gery E. Executable object modeling with statecharts. Computer 30 7 (1997) 31-42
    • (1997) Computer , vol.30 , Issue.7 , pp. 31-42
    • Harel, D.1    Gery, E.2
  • 24
    • 33847165824 scopus 로고    scopus 로고
    • D. Drusinsky, Model checking of statecharts using automatic white box test generation, circuites and systems, in: 48th Midwest Symposium on, 2005, pp. 327-332
  • 25
    • 17844384842 scopus 로고    scopus 로고
    • Reactive animation: Realistic modeling of complex dynamic systems
    • Efroni S., Harel D., and Cohen I.R. Reactive animation: Realistic modeling of complex dynamic systems. Computer 38 1 (2005) 38-47
    • (2005) Computer , vol.38 , Issue.1 , pp. 38-47
    • Efroni, S.1    Harel, D.2    Cohen, I.R.3
  • 26
    • 34047105227 scopus 로고    scopus 로고
    • Explaining a complex living system: Dynamics, multi-scaling and emergence
    • Cohen I.R., and Harel D. Explaining a complex living system: Dynamics, multi-scaling and emergence. J. Royal Soci. Inter. 4 (2007) 175-182
    • (2007) J. Royal Soci. Inter. , vol.4 , pp. 175-182
    • Cohen, I.R.1    Harel, D.2


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.