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Items: 1 to 20 of 113

1.

A hierarchical approach to model parameter optimization for developmental systems.

Hohm T, Zitzler E.

Biosystems. 2010 Nov-Dec;102(2-3):157-67. doi: 10.1016/j.biosystems.2010.09.002. Epub 2010 Sep 22.

PMID:
20851739
2.

Genetic network analyzer: a tool for the qualitative modeling and simulation of bacterial regulatory networks.

Batt G, Besson B, Ciron PE, de Jong H, Dumas E, Geiselmann J, Monte R, Monteiro PT, Page M, Rechenmann F, Ropers D.

Methods Mol Biol. 2012;804:439-62. doi: 10.1007/978-1-61779-361-5_22.

PMID:
22144166
3.

On the transient and steady-state estimates of interval genetic regulatory networks.

Li P, Lam J, Shu Z.

IEEE Trans Syst Man Cybern B Cybern. 2010 Apr;40(2):336-49. doi: 10.1109/TSMCB.2009.2022402. Epub 2009 Oct 23.

PMID:
19858029
4.

Dynamic simulation of regulatory networks using SQUAD.

Di Cara A, Garg A, De Micheli G, Xenarios I, Mendoza L.

BMC Bioinformatics. 2007 Nov 26;8:462.

5.

A data integration approach for cell cycle analysis oriented to model simulation in systems biology.

Alfieri R, Merelli I, Mosca E, Milanesi L.

BMC Syst Biol. 2007 Aug 1;1:35.

6.

Hierarchical analysis of piecewise affine models of gene regulatory networks.

Tournier L, Gouzé JL.

Theory Biosci. 2008 Jun;127(2):125-34. doi: 10.1007/s12064-008-0035-y. Epub 2008 Apr 25.

PMID:
18437441
7.

A network inference workflow applied to virulence-related processes in Salmonella typhimurium.

Taylor RC, Singhal M, Weller J, Khoshnevis S, Shi L, McDermott J.

Ann N Y Acad Sci. 2009 Mar;1158:143-58. doi: 10.1111/j.1749-6632.2008.03762.x.

PMID:
19348639
8.

Inference of gene regulatory networks using S-system: a unified approach.

Wang H, Qian L, Dougherty E.

IET Syst Biol. 2010 Mar;4(2):145-56. doi: 10.1049/iet-syb.2008.0175.

PMID:
20232994
9.

Boolean modeling in systems biology: an overview of methodology and applications.

Wang RS, Saadatpour A, Albert R.

Phys Biol. 2012 Oct;9(5):055001. doi: 10.1088/1478-3975/9/5/055001. Epub 2012 Sep 25. Review.

PMID:
23011283
10.

Simulation of genetic networks modelled by piecewise deterministic Markov processes.

Zeiser S, Franz U, Wittich O, Liebscher V.

IET Syst Biol. 2008 May;2(3):113-35. doi: 10.1049/iet-syb:20070045.

PMID:
18537453
11.

Modeling of gene regulatory network dynamics using threshold logic.

Gowda T, Vrudhula S, Kim S.

Ann N Y Acad Sci. 2009 Mar;1158:71-81. doi: 10.1111/j.1749-6632.2008.03754.x.

PMID:
19348633
12.

Network benchmarking: a happy marriage between systems and synthetic biology.

Minty JJ, Varedi K SM, Nina Lin X.

Chem Biol. 2009 Mar 27;16(3):239-41. doi: 10.1016/j.chembiol.2009.03.004.

13.

A new multiple regression approach for the construction of genetic regulatory networks.

Zhang SQ, Ching WK, Tsing NK, Leung HY, Guo D.

Artif Intell Med. 2010 Feb-Mar;48(2-3):153-60. doi: 10.1016/j.artmed.2009.11.001. Epub 2009 Dec 5.

PMID:
19963359
14.

Gene regulatory network inference: data integration in dynamic models-a review.

Hecker M, Lambeck S, Toepfer S, van Someren E, Guthke R.

Biosystems. 2009 Apr;96(1):86-103. doi: 10.1016/j.biosystems.2008.12.004. Epub 2008 Dec 27. Review.

PMID:
19150482
15.
16.
17.

Multicellular pattern formation: parameter estimation for ordinary differential equation-based gene regulatory network models.

Hohm T, Zitzler E.

IEEE Eng Med Biol Mag. 2009 Jul-Aug;28(4):52-7. doi: 10.1109/MEMB.2009.932905. No abstract available.

PMID:
19622425
18.

Network inference by combining biologically motivated regulatory constraints with penalized regression.

Parisi F, Koeppl H, Naef F.

Ann N Y Acad Sci. 2009 Mar;1158:114-24. doi: 10.1111/j.1749-6632.2008.03751.x.

PMID:
19348637
19.

Systems biology approaches to understanding stem cell fate choice.

Peltier J, Schaffer DV.

IET Syst Biol. 2010 Jan;4(1):1-11. doi: 10.1049/iet-syb.2009.0011. Review.

PMID:
20001088
20.

Logical modelling of regulatory networks with GINsim 2.3.

Naldi A, Berenguier D, Fauré A, Lopez F, Thieffry D, Chaouiya C.

Biosystems. 2009 Aug;97(2):134-9. doi: 10.1016/j.biosystems.2009.04.008. Epub 2009 May 6.

PMID:
19426782

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