-
1
-
-
79957681989
-
Formal methods for modeling biological regulatory networks
-
Richard, A., Comet, J.P., Bernot, G.: Formal Methods for Modeling Biological Regulatory Networks. In: Modern Formal Methods and Applications, pp. 83-122 (2006)
-
(2006)
Modern Formal Methods and Applications
, pp. 83-122
-
-
Richard, A.1
Comet, J.P.2
Bernot, G.3
-
2
-
-
38149083357
-
Rule-based modelling of cellular signalling
-
Caires, L., Li, L. (eds.), Springer, Heidelberg
-
Danos, V., Feret, J., Fontana, W., Harmer, R., Krivine, J.: Rule-Based Modelling of Cellular Signalling. In: Caires, L., Li, L. (eds.) CONCUR 2007. LNCS, vol. 4703, pp. 17-41. Springer, Heidelberg (2007)
-
(2007)
CONCUR 2007. LNCS
, vol.4703
, pp. 17-41
-
-
Danos, V.1
Feret, J.2
Fontana, W.3
Harmer, R.4
Krivine, J.5
-
3
-
-
0035888407
-
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., Regev, A., Shapiro, E., Silverman, W.: Application of a stochastic name-passing calculus to representation and simulation of molecular processes. Inf. Process. Lett. 80(1), 25-31 (2001) (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
-
4
-
-
38149103597
-
Gene rgulation in the pi clculus: Simulating cooperativity at the lambda switch
-
Transactions on Computational Systems Biology VII
-
Kuttler, C., Niehren, J.: Gene regulation in the pi calculus: Simulating cooperativity at the lambda switch. In: Priami, C., Ingólfsdóttir, A., Mishra, B., Riis Nielson, H. (eds.) Transactions on Computational Systems Biology VII. LNCS (LNBI), vol. 4230, pp. 24-55. Springer, Heidelberg (2006) (Pubitemid 351150622)
-
(2006)
Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)
, vol.4230
, pp. 24-55
-
-
Kuttler, C.1
Niehren, J.2
-
5
-
-
34250834115
-
A compositional approach to the stochastic dynamics of gene networks
-
Transactions on Computational Systems Biology IV
-
Blossey, R., Cardelli, L., Phillips, A.: A compositional approach to the stochastic dynamics of gene networks. In: Priami, C., Cardelli, L., Emmott, S. (eds.) Transactions on Computational Systems Biology IV. LNCS (LNBI), vol. 3939, pp. 99-122. Springer, Heidelberg (2006) (Pubitemid 350278761)
-
(2006)
Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)
, vol.3939
, pp. 99-122
-
-
Blossey, R.1
Cardelli, L.2
Phillips, A.3
-
6
-
-
33645306314
-
Time petri nets for modelling and analysis of biochemical networks
-
Popova-Zeugmann, L., Heiner, M., Koch, I.: Time petri nets for modelling and analysis of biochemical networks. Fundamenta Informaticae 67(1), 149-162 (2005)
-
(2005)
Fundamenta Informaticae
, vol.67
, Issue.1
, pp. 149-162
-
-
Popova-Zeugmann, L.1
Heiner, M.2
Koch, I.3
-
7
-
-
45749112203
-
Petri nets for systems and synthetic biology
-
Heiner, M., Gilbert, D., Donaldson, R.: Petri Nets for Systems and Synthetic Biology. In: Formal Methods for Computational Systems Biology, pp. 215-264 (2008)
-
(2008)
Formal Methods for Computational Systems Biology
, pp. 215-264
-
-
Heiner, M.1
Gilbert, D.2
Donaldson, R.3
-
8
-
-
57049127120
-
On a continuous degree of satisfaction of temporal logic formulae with applications to systems biology
-
Rizk, A., Batt, G., Fages, F., Soliman, S.: On a Continuous Degree of Satisfaction of Temporal Logic Formulae with Applications to Systems Biology. In: Computational Methods in Systems Biology, pp. 251-268 (2008)
-
(2008)
Computational Methods in Systems Biology
, pp. 251-268
-
-
Rizk, A.1
Batt, G.2
Fages, F.3
Soliman, S.4
-
9
-
-
33845198572
-
Incorporating time delays into the logical analysis of gene regulatory networks
-
Computational Methods in Systems Biology - International Conference, CMSB 2006, Proceedings
-
Siebert, H., Bockmayr, A.: Incorporating Time Delays into the Logical Analysis of Gene Regulatory Networks. In: Computational Methods in Systems Biology, pp. 169-183 (2006) (Pubitemid 44849986)
-
(2006)
Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)
, vol.4210
, pp. 169-183
-
-
Siebert, H.1
Bockmayr, A.2
-
10
-
-
0036156823
-
Modeling and analyzing biomolecular networks
-
Alur, R., Belta, C., Kumar, V., Mintz, M., Pappas, G.J., Rubin, H., Schug, J.: Modeling and analyzing biomolecular networks. Computing in Science and Engineering 4(1), 20-31 (2002)
-
(2002)
Computing in Science and Engineering
, vol.4
, Issue.1
, pp. 20-31
-
-
Alur, R.1
Belta, C.2
Kumar, V.3
Mintz, M.4
Pappas, G.J.5
Rubin, H.6
Schug, J.7
-
11
-
-
36949019568
-
Hybrid modelling and dynamical analysis of gene regulatory networks with delays
-
DOI 10.1159/000110010
-
Ahmad, J., Bernot, G., Comet, J.P., Lime, D., Roux, O.: Hybrid modelling and dynamical analysis of gene regulatory networks with delays. Complexus 3(4), 231-251 (2006) (Pubitemid 350239163)
-
(2006)
Complexus
, vol.3
, Issue.4
, pp. 231-251
-
-
Ahmad, J.1
Bernot, G.2
Comet, J.-P.3
Lime, D.4
Roux, O.5
-
12
-
-
38049132336
-
Efficient, correct simulation of biological processes in the stochastic pi-calculus
-
Calder, M., Gilmore, S. (eds.), 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)
CMSB 2007. LNCS (LNBI)
, vol.4695
, pp. 184-199
-
-
Phillips, A.1
Cardelli, L.2
-
13
-
-
49949112078
-
The beta workbench: A computational tool to study the dynamics of biological systems
-
bbn023
-
Dematte, L., Priami, C., Romanel, A.: The Beta Workbench: a computational tool to study the dynamics of biological systems. Brief Bioinform., bbn023 (2008)
-
(2008)
Brief Bioinform
-
-
Dematte, L.1
Priami, C.2
Romanel, A.3
-
14
-
-
65549101937
-
Bio-pepa: A framework for the modelling and analysis of biological systems
-
Ciocchetta, F., Hillston, J.: Bio-pepa: A framework for the modelling and analysis of biological systems. Theoretical Computer Science 410(33-34), 3065-3084 (2009)
-
(2009)
Theoretical Computer Science
, vol.410
, Issue.33-34
, pp. 3065-3084
-
-
Ciocchetta, F.1
Hillston, J.2
-
15
-
-
33745802027
-
PRISM: A tool for automatic verification of probabilistic systems
-
DOI 10.1007/11691372-29, Tools and Algorithms for the Construction and Analysis of Systems - 12th International Conference, TACAS 2006. Held as Part of the Joint European Conf. on Theory and Practice of Software, ETAPS 2006
-
Hinton, A., Kwiatkowska, M., Norman, G., Parker, D.: PRISM: A tool for automatic verification of probabilistic systems. In: Hermanns, H. (ed.) TACAS 2006. LNCS, vol. 3920, pp. 441-444. Springer, Heidelberg (2006) (Pubitemid 44019387)
-
(2006)
Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)
, vol.3920
, pp. 441-444
-
-
Hinton, A.1
Kwiatkowska, M.2
Norman, G.3
Parker, D.4
-
16
-
-
67349261995
-
Model checking probabilistic and stochastic extensions of the P-calculus
-
Norman, G., Palamidessi, C., Parker, D., Wu, P.: Model checking probabilistic and stochastic extensions of the p-calculus. IEEE Transactions on Software Engineering 35(2), 209-223 (2009)
-
(2009)
IEEE Transactions on Software Engineering
, vol.35
, Issue.2
, pp. 209-223
-
-
Norman, G.1
Palamidessi, C.2
Parker, D.3
Wu, P.4
-
17
-
-
34447270783
-
Semantics of biological regulatory networks
-
DOI 10.1016/j.entcs.2004.01.038, PII S157106610700494X, Proceedings of the First Workshop on Concurrent Models in Molecular Biology (BioConcur 2003)
-
Bernot, G., Cassez, F., Comet, J.P., Delaplace, F., Müller, C., Roux, O.: Semantics of biological regulatory networks. Electronic Notes in Theoretical Computer Science 180(3), 3-14 (2007) (Pubitemid 47044923)
-
(2007)
Electronic Notes in Theoretical Computer Science
, vol.180
, Issue.3
, pp. 3-14
-
-
Bernot, G.1
Cassez, F.2
Comet, J.-P.3
Delaplace, F.4
Muller, C.5
Roux, O.6
-
18
-
-
44049113210
-
A calculus of mobile processes, parts. I and II
-
Milner, R.: A calculus of mobile processes, parts. I and II. Information and Computation 100, 1-77 (1992)
-
(1992)
Information and Computation
, vol.100
, pp. 1-77
-
-
Milner, R.1
-
19
-
-
77955820877
-
Gene regulatory networks with multiplexes
-
October
-
Bernot, G., Comet, J.P., Khalis, Z.: Gene regulatory networks with multiplexes. In: European Simulation andModelling Conference Proceedings, pp. 423-432 (October 2008)
-
(2008)
European Simulation andModelling Conference Proceedings
, pp. 423-432
-
-
Bernot, G.1
Comet, J.P.2
Khalis, Z.3
-
20
-
-
84974715948
-
Stochastic p-Calculus
-
Priami, C.: Stochastic p-Calculus. The Computer Journal 38(7), 578-589 (1995)
-
(1995)
The Computer Journal
, vol.38
, Issue.7
, pp. 578-589
-
-
Priami, C.1
-
21
-
-
33645429016
-
Exact stochastic simulation of coupled chemical reactions
-
Gillespie, D.T.: Exact stochastic simulation of coupled chemical reactions. The Journal of Physical Chemistry 81(25), 2340-2361 (1977)
-
(1977)
The Journal of Physical Chemistry
, vol.81
, Issue.25
, pp. 2340-2361
-
-
Gillespie, D.T.1
-
23
-
-
37349116795
-
Deriving structure from evolution: Metazoan segmentation
-
Francois, P., Hakim, V., Siggia, E.D.: Deriving structure from evolution: metazoan segmentation. Mol. Syst. Biol. 3 (2007)
-
(2007)
Mol. Syst. Biol.
, vol.3
-
-
Francois, P.1
Hakim, V.2
Siggia, E.D.3
-
24
-
-
79957680269
-
-
Phillips, A.: SPiM, http://research.microsoft.com/~aphillip/spim
-
SPiM
-
-
Phillips, A.1
-
25
-
-
62549162241
-
Modeling ERBB receptor-regulated G1/S transition to find novel targets for de novo trastuzumab resistance
-
Sahin, O., Frohlich, H., Lobke, C., Korf, U., Burmester, S., Majety, M., Mattern, J., Schupp, I., Chaouiya, C., Thieffry, D., Poustka, A., Wiemann, S., Beissbarth, T., Arlt, D.: Modeling ERBB receptor-regulated G1/S transition to find novel targets for de novo trastuzumab resistance. BMC Systems Biology 3(1) (2009)
-
(2009)
BMC Systems Biology
, vol.3
, Issue.1
-
-
Sahin, O.1
Frohlich, H.2
Lobke, C.3
Korf, U.4
Burmester, S.5
Majety, M.6
Mattern, J.7
Schupp, I.8
Chaouiya, C.9
Thieffry, D.10
Poustka, A.11
Wiemann, S.12
Beissbarth, T.13
Arlt, D.14
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