메뉴 건너뛰기




Volumn , Issue , 2009, Pages 932-943

Integrating diverse reaction types into stochastic models - A signaling pathway case study in the imperative π-calculus

Author keywords

[No Author keywords available]

Indexed keywords

BIOCHEMICAL SYSTEMS; CELL CYCLE; DETERMINISTIC MODELS; ENZYMATIC REACTION; KINETIC MODELS; MICHAELIS-MENTEN KINETIC; SIGNALING PATHWAYS; WNT SIGNALING PATHWAYS;

EID: 77951554571     PISSN: 08917736     EISSN: None     Source Type: Conference Proceeding    
DOI: 10.1109/WSC.2009.5429723     Document Type: Conference Paper
Times cited : (10)

References (28)
  • 1
    • 8744227753 scopus 로고    scopus 로고
    • Cell cycle kinetics of expanding populations of neural stem and progenitor cells in vitro
    • DOI 10.1002/bit.20246
    • Alam, S., A. Sen, L. A. Behie, and M. Kallos. 2004. Cell Cycle Kinetics of Expanding Populations of Neural Stem and Progenitor Cells In Vitro. Biotechnology and Bioengineering 88:332-347. (Pubitemid 39524252)
    • (2004) Biotechnology and Bioengineering , vol.88 , Issue.3 , pp. 332-347
    • Alam, S.1    Sen, A.2    Behie, L.A.3    Kallos, M.S.4
  • 2
    • 49949085999 scopus 로고    scopus 로고
    • A Structured Approach for the Engineering of Biochemical Network Models, Illustrated for Signalling Pathways
    • Breitling, R., D. Gilbert, M. Heiner, and R. Orton. 2008. A Structured Approach for the Engineering of Biochemical Network Models, Illustrated for Signalling Pathways. Briefings in Bioinformatics 9 (5): 404-421.
    • (2008) Briefings in Bioinformatics , vol.9 , Issue.5 , pp. 404-421
    • Breitling, R.1    Gilbert, D.2    Heiner, M.3    Orton, R.4
  • 3
    • 33746803311 scopus 로고    scopus 로고
    • Wnt pathway mutations selected by optimal Beta-catenin signaling for tumorigenesis
    • DOI 10.1016/j.febslet.2006.05.053, PII S0014579306006661
    • Cho, K., S. Baek, and M. Sung. 2006. Wnt Pathway Mutations Selected by Optimal Beta-Catenin Signaling for Tumorigenesis. FEBS Letters 580:3665-3670. (Pubitemid 44183807)
    • (2006) FEBS Letters , vol.580 , Issue.15 , pp. 3665-3670
    • Cho, K.-H.1    Baek, S.2    Sung, M.-H.3
  • 4
    • 43049179364 scopus 로고    scopus 로고
    • Bio-PEPA: An Extension of the Process Algebra PEPA for Biochemical Networks
    • DOI 10.1016/j.entcs.2007.12.008, PII S1571066108000285
    • Ciocchetta, F., and J. Hillston. 2008. Bio-PEPA: An Extension of the Process Algebra PEPA for Biochemical Networks. ENTCS 194 (3): 103-117. (Pubitemid 351173025)
    • (2008) Electronic Notes in Theoretical Computer Science , vol.194 , Issue.3 , pp. 103-117
    • Ciocchetta, F.1    Hillston, J.2
  • 5
    • 54349119496 scopus 로고    scopus 로고
    • Modelling Co-Transcriptional Cleavage in the Synthesis of Yeast Pre-rRNA
    • Ciocchetta, F., J. Hillston, M. Kos, and D. Tollervey. 2008. Modelling Co-Transcriptional Cleavage in the Synthesis of Yeast Pre-rRNA. TCS 408 (1): 41-54.
    • (2008) TCS , vol.408 , Issue.1 , pp. 41-54
    • Ciocchetta, F.1    Hillston, J.2    Kos, M.3    Tollervey, D.4
  • 6
    • 38149083357 scopus 로고    scopus 로고
    • Rule-Based Modelling of Cellular Signalling
    • International Conference on Concurrency Theory (CONCUR), ed. L. Caires and V. Vasconcelos, Springer.
    • Danos, V., J. Feret, W. Fontana, R. Harmer, and J. Krivine. 2007. Rule-Based Modelling of Cellular Signalling. In International Conference on Concurrency Theory (CONCUR), ed. L. Caires and V. Vasconcelos, Volume 4703 of LNCS, 17-41: Springer.
    • (2007) LNCS , vol.4703 , pp. 17-41
    • Danos, V.1    Feret, J.2    Fontana, W.3    Harmer, R.4    Krivine, J.5
  • 7
    • 20844455677 scopus 로고    scopus 로고
    • Spontaneous Separation of Bi-Stable Biochemical Systems into Spatial Domains of Opposite Phases
    • Elf, J., and M. Ehrenberg. 2004. Spontaneous Separation of Bi-Stable Biochemical Systems into Spatial Domains of Opposite Phases. Systems Biology, IEE Proceedings 1 (2): 230-236.
    • (2004) Systems Biology, IEE Proceedings , vol.1 , Issue.2 , pp. 230-236
    • Elf, J.1    Ehrenberg, M.2
  • 8
    • 0017030517 scopus 로고
    • A General Method for Numerically Simulating the Stochastic Time Evolution of Coupled Chemical Reactions
    • December.
    • Gillespie, D. T. 1976, December. A General Method for Numerically Simulating the Stochastic Time Evolution of Coupled Chemical Reactions. Journal of Computational Physics 22 (4): 403-434.
    • (1976) Journal of Computational Physics , vol.22 , Issue.4 , pp. 403-434
    • Gillespie, D.T.1
  • 9
    • 69949162559 scopus 로고    scopus 로고
    • Snoopy - A Tool to Design and Execute Graph-Based Formalisms
    • Heiner, M., R. Richter, M. Schwarick, and C. Rohr. 2008. Snoopy - A Tool to Design and Execute Graph-Based Formalisms. Petri Net Newsletter 74:8-22.
    • (2008) Petri Net Newsletter , vol.74 , pp. 8-22
    • Heiner, M.1    Richter, R.2    Schwarick, M.3    Rohr, C.4
  • 13
    • 38149027117 scopus 로고    scopus 로고
    • A Stochastic Pi Calculus for Concurrent Objects
    • Second International Conference on Algebraic Biology, ed. H. Anai, K. Horimoto, and T. Kutsia, Springer.
    • Kuttler, C., C. Lhoussaine, and J. Niehren. 2007. A Stochastic Pi Calculus for Concurrent Objects. In Second International Conference on Algebraic Biology, ed. H. Anai, K. Horimoto, and T. Kutsia, Volume 4545 of LNCS, 232-246: Springer.
    • (2007) LNCS , vol.4545 , pp. 232-246
    • Kuttler, C.1    Lhoussaine, C.2    Niehren, J.3
  • 15
    • 33646800545 scopus 로고    scopus 로고
    • Wnt signal pathways and neural stem cell differentiation
    • DOI 10.1159/000092097
    • Lange, C., E. Mix, K. Rateitschak, and A. Rolfs. 2006. Wnt Signal Pathways and Neural Stem Cell Differentiation. Neurodegenerative Diseases 3 (1-2): 76-86. (Pubitemid 43760372)
    • (2006) Neurodegenerative Diseases , vol.3 , Issue.1-2 , pp. 76-86
    • Lange, C.1    Mix, E.2    Rateitschak, K.3    Rolfs, A.4
  • 16
    • 4043167812 scopus 로고    scopus 로고
    • A Stochastic Process Algebra Approach to Simulation of Autoreactive Lymphocyte Recruitment
    • Lecca, P., C. Priami, P. Quaglia, B. Rossi, C. Laudanna, and G. Constantin. 2004. A Stochastic Process Algebra Approach to Simulation of Autoreactive Lymphocyte Recruitment. SIMULATION 80 (6): 273-288.
    • (2004) SIMULATION , vol.80 , Issue.6 , pp. 273-288
    • Lecca, P.1    Priami, C.2    Quaglia, P.3    Rossi, B.4    Laudanna, C.5    Constantin, G.6
  • 17
    • 4243067196 scopus 로고    scopus 로고
    • The roles of APC and Axin derived from experimental and theoretical analysis of the Wnt pathway
    • Lee, E., A. Salic, R. Krüger, R. Heinrich, and M. Kirschner. 2003. The roles of APC and Axin derived from experimental and theoretical analysis of the Wnt pathway. PLoS Biol 1 (1): 116-132.
    • (2003) PLoS Biol , vol.1 , Issue.1 , pp. 116-132
    • Lee, E.1    Salic, A.2    Krüger, R.3    Heinrich, R.4    Kirschner, M.5
  • 19
    • 0036175701 scopus 로고    scopus 로고
    • Nuclear pore complex is able to transport macromolecules with diameters of 39 nm
    • DOI 10.1091/mbc.01-06-0308
    • Pant́e, N., and M. Kann. 2002. Nuclear Pore Complex Is Able to Transport Macromolecules with Diameters of 39 nm. Molecular Biology of the Cell 13:425-434. (Pubitemid 34165072)
    • (2002) Molecular Biology of the Cell , vol.13 , Issue.2 , pp. 425-434
    • Pante, N.1    Kann, M.2
  • 21
    • 84974715948 scopus 로고
    • Stochastic π-Calculus
    • Priami, C. 1995. Stochastic π-Calculus. Computer Journal 6:578-589.
    • (1995) Computer Journal , vol.6 , pp. 578-589
    • Priami, C.1
  • 22
    • 0035888407 scopus 로고    scopus 로고
    • Application of a stochastic name-passing calculus to representation and simulation of molecular processes
    • DOI 10.1016/S0020-0190(01)00214-9, PII S0020019001002149
    • Priami, C., A. Regev, E. Shapiro, and W. Silverman. 2001. Application of a Stochastic Name-Passing Calculus to Representation and Simulation of Molecular Processes. Information Processing Letters 80:25-31. (Pubitemid 32833107)
    • (2001) Information Processing Letters , vol.80 , Issue.1 , pp. 25-31
    • Priami, C.1    Regev, A.2    Shapiro, E.3    Silverman, W.4
  • 23
    • 33644516416 scopus 로고    scopus 로고
    • The Pi Calculus as an Abstraction for Biomolecular Systems
    • ed. G. Ciobanu and G. Rozenberg, Springer.
    • Regev, A., and E. Shapiro. 2004. The Pi Calculus as an Abstraction for Biomolecular Systems. In Modelling in Molecular Biology, ed. G. Ciobanu and G. Rozenberg, 219-266. Springer.
    • (2004) Modelling in Molecular Biology , pp. 219-266
    • Regev, A.1    Shapiro, E.2
  • 27
    • 33744791463 scopus 로고    scopus 로고
    • Wnt signaling: Is the party in the nucleus?
    • Willert, K., and K. Jones. 2006. Wnt signaling: is the party in the nucleus? Genes Development 20:1394-1404.
    • (2006) Genes Development , vol.20 , pp. 1394-1404
    • Willert, K.1    Jones, K.2
  • 28
    • 4544321024 scopus 로고    scopus 로고
    • Modelling and Simulation of IntraCellular Dynamics: Choosing an Appropriate Framework
    • Wolkenhauer, O., M. Ullah, W. Kolch, and K. H. Cho. 2004. Modelling and Simulation of IntraCellular Dynamics: Choosing an Appropriate Framework. IEEE T Nanobiosci 3 (3): 200-207.
    • (2004) IEEE T Nanobiosci , vol.3 , Issue.3 , pp. 200-207
    • Wolkenhauer, O.1    Ullah, M.2    Kolch, W.3    Cho, K.H.4


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.