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Items: 1 to 20 of 362

1.

Deconstructing the core dynamics from a complex time-lagged regulatory biological circuit.

Eriksson O, Brinne B, Zhou Y, Björkegren J, Tegnér J.

IET Syst Biol. 2009 Mar;3(2):113-29. doi: 10.1049/iet-syb.2007.0028.

PMID:
19292565
2.

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.

3.

Global stability analysis and robust design of multi-time-scale biological networks under parametric uncertainties.

Meyer-Baese A, Koshkouei AJ, Emmett MR, Goodall DP.

Neural Netw. 2009 Jul-Aug;22(5-6):658-63. doi: 10.1016/j.neunet.2009.06.051. Epub 2009 Jul 14.

PMID:
19632813
4.
6.

Functional holography analysis: simplifying the complexity of dynamical networks.

Baruchi I, Grossman D, Volman V, Shein M, Hunter J, Towle VL, Ben-Jacob E.

Chaos. 2006 Mar;16(1):015112.

PMID:
16599778
7.

Genome-wide system analysis reveals stable yet flexible network dynamics in yeast.

Gustafsson M, Hörnquist M, Björkegren J, Tegnér J.

IET Syst Biol. 2009 Jul;3(4):219-28. doi: 10.1049/iet-syb.2008.0112.

PMID:
19640161
8.

Linear time-varying models can reveal non-linear interactions of biomolecular regulatory networks using multiple time-series data.

Kim J, Bates DG, Postlethwaite I, Heslop-Harrison P, Cho KH.

Bioinformatics. 2008 May 15;24(10):1286-92. doi: 10.1093/bioinformatics/btn107. Epub 2008 Mar 26.

PMID:
18367478
9.

Coupling oscillations and switches in genetic networks.

Gonze D.

Biosystems. 2010 Jan;99(1):60-9. doi: 10.1016/j.biosystems.2009.08.009. Epub 2009 Sep 6.

PMID:
19735694
10.

Analyzing steady states of dynamics of bio-molecules from the structure of regulatory networks.

Mochizuki A, Saito D.

J Theor Biol. 2010 Sep 21;266(2):323-35. doi: 10.1016/j.jtbi.2010.06.007. Epub 2010 Jun 8.

PMID:
20553943
11.

Comparing different ODE modelling approaches for gene regulatory networks.

Polynikis A, Hogan SJ, di Bernardo M.

J Theor Biol. 2009 Dec 21;261(4):511-30. doi: 10.1016/j.jtbi.2009.07.040. Epub 2009 Aug 6.

PMID:
19665034
12.

Periodic oscillation in delayed gene networks with SUM regulatory logic and small perturbations.

Wang Y, Ma Z, Shen J, Liu Z, Chen L.

Math Biosci. 2009 Jul;220(1):34-44. doi: 10.1016/j.mbs.2009.03.010. Epub 2009 Apr 17.

PMID:
19376139
13.

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
14.

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
15.
16.

Stochastic models and numerical algorithms for a class of regulatory gene networks.

Fournier T, Gabriel JP, Pasquier J, Mazza C, Galbete J, Mermod N.

Bull Math Biol. 2009 Aug;71(6):1394-431. doi: 10.1007/s11538-009-9407-9. Epub 2009 Apr 22.

PMID:
19387744
17.

Elementary network reconstruction: a framework for the analysis of regulatory networks in biological systems.

Dharmadi Y, Gonzalez R.

J Theor Biol. 2010 Apr 21;263(4):499-509. doi: 10.1016/j.jtbi.2009.12.007. Epub 2009 Dec 22.

PMID:
20004670
18.

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
19.

SysBioMed report: advancing systems biology for medical applications.

Wolkenhauer O, Fell D, De Meyts P, Blüthgen N, Herzel H, Le Novère N, Höfer T, Schürrle K, van Leeuwen I.

IET Syst Biol. 2009 May;3(3):131-6. doi: 10.1049/iet-syb.2009.0005.

PMID:
19449974
20.

Prediction of pairwise gene interaction using threshold logic.

Gowda T, Vrudhula S, Kim S.

Ann N Y Acad Sci. 2009 Mar;1158:276-86. doi: 10.1111/j.1749-6632.2008.03763.x.

PMID:
19348649

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