메뉴 건너뛰기




Volumn 6602 LNCS, Issue , 2011, Pages 338-357

Biochemical reaction rules with constraints

Author keywords

[No Author keywords available]

Indexed keywords

ARBITRARY CONSTRAINTS; BIOCHEMICAL REACTIONS; CONSTRAINT LANGUAGE; CONSTRAINT PROGRAMMING; DECISION PROBLEMS; NP COMPLETE; POLYNOMIAL-TIME; PROGRAMMING LANGUAGE; RULE-BASED PROGRAMMING; STOCHASTIC MODELING; STOCHASTIC SIMULATORS; SYSTEMS BIOLOGY;

EID: 79953232743     PISSN: 03029743     EISSN: 16113349     Source Type: Book Series    
DOI: 10.1007/978-3-642-19718-5_18     Document Type: Conference Paper
Times cited : (34)

References (23)
  • 1
    • 10244219918 scopus 로고    scopus 로고
    • Bionetgen: Software for rule-based modeling of signal transduction based on the interactions of molecular domains
    • Blinov, M.L., Faeder, J.R., Goldstein, B., Hlavacek, W.S.: Bionetgen: software for rule-based modeling of signal transduction based on the interactions of molecular domains. Bioinformatics 20(17), 3289-3291 (2004)
    • (2004) Bioinformatics , vol.20 , Issue.17 , pp. 3289-3291
    • Blinov, M.L.1    Faeder, J.R.2    Goldstein, B.3    Hlavacek, W.S.4
  • 2
    • 48249136571 scopus 로고    scopus 로고
    • From processes to odes by chemistry
    • Springer, Heidelberg
    • Cardelli, L.: From processes to odes by chemistry. In: IFIP TCS. IFIP, vol. 273, pp. 261-281. Springer, Heidelberg (2008)
    • (2008) IFIP TCS. IFIP , vol.273 , pp. 261-281
    • Cardelli, L.1
  • 3
    • 26444590537 scopus 로고    scopus 로고
    • The biochemical abstract machine biocham
    • Danos, V., Schachter, V. (eds.) CMSB 2004. Springer, Heidelberg
    • Chabrier-Rivier, N., Fages, F., Soliman, S.: The biochemical abstract machine biocham. In: Danos, V., Schachter, V. (eds.) CMSB 2004. LNCS (LNBI), vol. 3082, pp. 172-191. Springer, Heidelberg (2005)
    • (2005) LNCS (LNBI) , vol.3082 , pp. 172-191
    • Chabrier-Rivier, N.1    Fages, F.2    Soliman, S.3
  • 4
    • 78449272958 scopus 로고    scopus 로고
    • Abstracting the differential semantics of rule-based models: Exact and automated model reduction
    • IEEE Press, Los Alamitos
    • Danos, V., Feret, J., Fontana,W., Harmer, R., Krivine, J.: Abstracting the differential semantics of rule-based models: Exact and automated model reduction. In: 25th LICS, pp. 362-381. IEEE Press, Los Alamitos (2010)
    • (2010) 25th LICS , pp. 362-381
    • Danos, V.1    Feret, J.2    Fontana, W.3    Harmer, R.4    Krivine, J.5
  • 5
    • 38149064616 scopus 로고    scopus 로고
    • Scalable simulation of cellular signaling networks
    • Shao, Z. (ed.) APLAS 2007. Springer, Heidelberg
    • Danos, V., Feret, J., Fontana, W., Krivine, J.: Scalable simulation of cellular signaling networks. In: Shao, Z. (ed.) APLAS 2007. LNCS, vol. 4807, pp. 139-157. Springer, Heidelberg (2007)
    • (2007) LNCS , vol.4807 , pp. 139-157
    • Danos, V.1    Feret, J.2    Fontana, W.3    Krivine, J.4
  • 6
    • 4444382239 scopus 로고    scopus 로고
    • Formal molecular biology
    • Danos, V., Laneve, C.: Formal molecular biology. TCS 325(1), 69-110 (2004)
    • (2004) TCS , vol.325 , Issue.1 , pp. 69-110
    • Danos, V.1    Laneve, C.2
  • 7
    • 0029703268 scopus 로고    scopus 로고
    • The reflexive cham and the join-calculus
    • ACM Press, New York
    • Fournet, C., Gonthier, G.: The reflexive cham and the join-calculus. In: POPL, pp. 372-385. ACM Press, New York (1996)
    • (1996) POPL , pp. 372-385
    • Fournet, C.1    Gonthier, G.2
  • 8
    • 0017030517 scopus 로고
    • A general method for numerically simulating the stochastic time evolution of coupled chemical reactions
    • Gillespie, D.T.: A general method for numerically simulating the stochastic time evolution of coupled chemical reactions. Journal of Computational Physics 22(4), 403-434 (1976)
    • (1976) Journal of Computational Physics , vol.22 , Issue.4 , pp. 403-434
    • Gillespie, D.T.1
  • 9
    • 43049138472 scopus 로고    scopus 로고
    • SBML: A user interface mark-up language based on interaction style
    • Gilroy, S.W., Harrison, M.D.: SBML: a user interface mark-up language based on interaction style. Int. J. Web Eng. Technol. 4(2), 207-234 (2008)
    • (2008) Int. J. Web Eng. Technol. , vol.4 , Issue.2 , pp. 207-234
    • Gilroy, S.W.1    Harrison, M.D.2
  • 10
    • 70349306859 scopus 로고    scopus 로고
    • Dynamic compartments in the imperative pi calculus
    • Degano, P., Gorrieri, R. (eds.) CMSB 2009. Springer, Heidelberg
    • John, M., Lhoussaine, C., Niehren, J.: Dynamic compartments in the imperative pi calculus. In: Degano, P., Gorrieri, R. (eds.) CMSB 2009. LNCS, vol. 5688, pp. 235-250. Springer, Heidelberg (2009)
    • (2009) LNCS , vol.5688 , pp. 235-250
    • John, M.1    Lhoussaine, C.2    Niehren, J.3
  • 11
    • 77950323033 scopus 로고    scopus 로고
    • The attributed pi calculus with priorities
    • Priami, C., Breitling, R., Gilbert, D., Heiner, M., Uhrmacher, A.M. (eds.) Transactions on Computational Systems Biology XII. Springer, Heidelberg
    • John, M., Lhoussaine, C., Niehren, J., Uhrmacher, A.: The attributed pi calculus with priorities. In: Priami, C., Breitling, R., Gilbert, D., Heiner, M., Uhrmacher, A.M. (eds.) Transactions on Computational Systems Biology XII. LNCS, vol. 5945, pp. 13-76. Springer, Heidelberg (2010)
    • (2010) LNCS , vol.5945 , pp. 13-76
    • John, M.1    Lhoussaine, C.2    Niehren, J.3    Uhrmacher, A.4
  • 12
    • 70350216058 scopus 로고    scopus 로고
    • Modelling epigenetic information maintenance: A kappa tutorial
    • Bouajjani, A., Maler, O. (eds.) CAV 2009. Springer, Heidelberg
    • Krivine, J., Danos, V., Benecke, A.: Modelling epigenetic information maintenance: A kappa tutorial. In: Bouajjani, A., Maler, O. (eds.) CAV 2009. LNCS, vol. 5643, pp. 17-32. Springer, Heidelberg (2009)
    • (2009) LNCS , vol.5643 , pp. 17-32
    • Krivine, J.1    Danos, V.2    Benecke, A.3
  • 13
    • 77950323929 scopus 로고    scopus 로고
    • Rule-based modeling of transcriptional attenuation at the tryptophan operon
    • Priami, C., Breitling, R., Gilbert, D., Heiner, M., Uhrmacher, A.M. (eds.) Transactions on Computational Systems Biology XII. Springer, Heidelberg
    • Kuttler, C., Lhoussaine, C., Nebut, M.: Rule-based modeling of transcriptional attenuation at the tryptophan operon. In: Priami, C., Breitling, R., Gilbert, D., Heiner, M., Uhrmacher, A.M. (eds.) Transactions on Computational Systems Biology XII. LNCS, vol. 5945, pp. 199-228. Springer, Heidelberg (2010)
    • (2010) LNCS , vol.5945 , pp. 199-228
    • Kuttler, C.1    Lhoussaine, C.2    Nebut, M.3
  • 14
    • 38149027117 scopus 로고    scopus 로고
    • A stochastic pi calculus for concurrent objects
    • Anai, H., Horimoto, K., Kutsia, T. (eds.) Ab 2007. Springer, Heidelberg
    • Kuttler, C., Lhoussaine, C., Niehren, J.: A stochastic pi calculus for concurrent objects. In: Anai, H., Horimoto, K., Kutsia, T. (eds.) Ab 2007. LNCS, vol. 4545, pp. 232-246. Springer, Heidelberg (2007)
    • (2007) LNCS , vol.4545 , pp. 232-246
    • Kuttler, C.1    Lhoussaine, C.2    Niehren, J.3
  • 15
    • 70349993136 scopus 로고    scopus 로고
    • From biochemistry to stochastic processes
    • Laneve, C., Pradalier, S., Zavattaro, G.: From biochemistry to stochastic processes. ENTCS 253(3), 167-185 (2009)
    • (2009) ENTCS , vol.253 , Issue.3 , pp. 167-185
    • Laneve, C.1    Pradalier, S.2    Zavattaro, G.3
  • 16
    • 79953185730 scopus 로고    scopus 로고
    • The space and motion of communicating agents author: Robin Milner
    • Papanikolaou, N.: The space and motion of communicating agents author: Robin Milner. SIGACT News 41(3), 51-55 (2010)
    • (2010) SIGACT News , vol.41 , Issue.3 , pp. 51-55
    • Papanikolaou, N.1
  • 17
    • 38049132336 scopus 로고    scopus 로고
    • Efficient, correct simulation of biological processes in the stochastic pi-calculus
    • Calder, M., Gilmore, S. (eds.) CMSB 2007. Springer, Heidelberg
    • Phillips, A., Cardelli, L.: Efficient, correct simulation of biological processes in the stochastic pi-calculus. In: Calder, M., Gilmore, S. (eds.) CMSB 2007. LNCS (LNBI), vol. 4695, pp. 184-199. Springer, Heidelberg (2007)
    • (2007) LNCS (LNBI) , vol.4695 , pp. 184-199
    • Phillips, A.1    Cardelli, L.2
  • 18
    • 84974715948 scopus 로고
    • Stochastic pi-calculus
    • Priami, C.: Stochastic pi-calculus. Comput. J. 38(7), 578-589 (1995)
    • (1995) Comput. J. , vol.38 , Issue.7 , pp. 578-589
    • Priami, C.1
  • 19
    • 17644396339 scopus 로고    scopus 로고
    • Dizzy: Stochastic simulation of large-scale genetic regulatory networks
    • Ramsey, S., Orrell, D., Bolouri, H.: Dizzy: Stochastic simulation of large-scale genetic regulatory networks. J. Bioinformatics and Computational Biology 3(2), 415-436 (2005)
    • (2005) J. Bioinformatics and Computational Biology , vol.3 , Issue.2 , pp. 415-436
    • Ramsey, S.1    Orrell, D.2    Bolouri, H.3
  • 20
    • 4444383325 scopus 로고    scopus 로고
    • Bioambients: An abstraction for biological compartments
    • Regev, A., Panina, E.M., Silverman, W., Cardelli, L., Shapiro, E.Y.: Bioambients: an abstraction for biological compartments. TCS 325(1), 141-167 (2004)
    • (2004) TCS , vol.325 , Issue.1 , pp. 141-167
    • Regev, A.1    Panina, E.M.2    Silverman, W.3    Cardelli, L.4    Shapiro, E.Y.5
  • 21
    • 0037179670 scopus 로고    scopus 로고
    • Cells as Computation
    • Regev, A., Shapiro, E.: Cells as Computation. Nature 419, 343 (2002)
    • (2002) Nature , vol.419 , pp. 343
    • Regev, A.1    Shapiro, E.2
  • 22
    • 70350733471 scopus 로고    scopus 로고
    • On the computational power of BlenX
    • Romanel, A., Priami, C.: On the computational power of BlenX. TCS 411(2), 542-565 (2010)
    • (2010) TCS , vol.411 , Issue.2 , pp. 542-565
    • Romanel, A.1    Priami, C.2
  • 23
    • 37149049106 scopus 로고    scopus 로고
    • A core calculus for a comparative analysis of bio-inspired calculi
    • De Nicola, R. (ed.) ESOP 2007. Springer, Heidelberg
    • Versari, C.: A core calculus for a comparative analysis of bio-inspired calculi. In: De Nicola, R. (ed.) ESOP 2007. LNCS, vol. 4421, pp. 411-425. Springer, Heidelberg (2007)
    • (2007) LNCS , vol.4421 , pp. 411-425
    • Versari, C.1


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.