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Items: 1 to 20 of 129

1.

Models and computational strategies linking physiological response to molecular networks from large-scale data.

Ortega F, Sameith K, Turan N, Compton R, Trevino V, Vannucci M, Falciani F.

Philos Trans A Math Phys Eng Sci. 2008 Sep 13;366(1878):3067-89. doi: 10.1098/rsta.2008.0085.

2.

Resources for integrative systems biology: from data through databases to networks and dynamic system models.

Ng A, Bursteinas B, Gao Q, Mollison E, Zvelebil M.

Brief Bioinform. 2006 Dec;7(4):318-30. Epub 2006 Oct 13. Review.

PMID:
17040977
3.

Computational systems biology and dose-response modeling in relation to new directions in toxicity testing.

Zhang Q, Bhattacharya S, Andersen ME, Conolly RB.

J Toxicol Environ Health B Crit Rev. 2010 Feb;13(2-4):253-76. doi: 10.1080/10937404.2010.483943.

PMID:
20574901
4.

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.

5.

Dynamic modelling and analysis of biochemical networks: mechanism-based models and model-based experiments.

van Riel NA.

Brief Bioinform. 2006 Dec;7(4):364-74. Epub 2006 Nov 14. Review.

PMID:
17107967
6.

Systems medicine and metabolic modelling.

Mardinoglu A, Nielsen J.

J Intern Med. 2012 Feb;271(2):142-54. doi: 10.1111/j.1365-2796.2011.02493.x. Review.

7.

Modeling cancer: integration of "omics" information in dynamic systems.

Stransky B, Barrera J, Ohno-Machado L, De Souza SJ.

J Bioinform Comput Biol. 2007 Aug;5(4):977-86. Review.

PMID:
17787066
8.

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
9.

Predicting disease phenotypes based on the molecular networks with condition-responsive correlation.

Lee S, Lee E, Lee KH, Lee D.

Int J Data Min Bioinform. 2011;5(2):131-42.

PMID:
21544951
10.

Genome-scale modeling of human metabolism - a systems biology approach.

Mardinoglu A, Gatto F, Nielsen J.

Biotechnol J. 2013 Sep;8(9):985-96. doi: 10.1002/biot.201200275. Epub 2013 Apr 24. Review.

PMID:
23613448
11.

Exploring metabolic pathways in genome-scale networks via generating flux modes.

Rezola A, de Figueiredo LF, Brock M, Pey J, Podhorski A, Wittmann C, Schuster S, Bockmayr A, Planes FJ.

Bioinformatics. 2011 Feb 15;27(4):534-40. doi: 10.1093/bioinformatics/btq681. Epub 2010 Dec 10.

PMID:
21149278
12.

Bacterial molecular networks: bridging the gap between functional genomics and dynamical modelling.

van Helden J, Toussaint A, Thieffry D.

Methods Mol Biol. 2012;804:1-11. doi: 10.1007/978-1-61779-361-5_1. Review.

PMID:
22144145
13.

Reconciliation of metabolites and biochemical reactions for metabolic networks.

Bernard T, Bridge A, Morgat A, Moretti S, Xenarios I, Pagni M.

Brief Bioinform. 2014 Jan;15(1):123-35. doi: 10.1093/bib/bbs058. Epub 2012 Nov 19. Review.

14.

New Markov-Shannon Entropy models to assess connectivity quality in complex networks: from molecular to cellular pathway, Parasite-Host, Neural, Industry, and Legal-Social networks.

Riera-Fernández P, Munteanu CR, Escobar M, Prado-Prado F, Martín-Romalde R, Pereira D, Villalba K, Duardo-Sánchez A, González-Díaz H.

J Theor Biol. 2012 Jan 21;293:174-88. doi: 10.1016/j.jtbi.2011.10.016. Epub 2011 Oct 25.

PMID:
22037044
15.

Kinetic modelling of plant metabolic pathways.

Rohwer JM.

J Exp Bot. 2012 Mar;63(6):2275-92. doi: 10.1093/jxb/ers080. Epub 2012 Mar 14. Review.

PMID:
22419742
16.

From network models to network responses: integration of thermodynamic and kinetic properties of yeast genome-scale metabolic networks.

Soh KC, Miskovic L, Hatzimanikatis V.

FEMS Yeast Res. 2012 Mar;12(2):129-43. doi: 10.1111/j.1567-1364.2011.00771.x. Epub 2011 Dec 19. Review.

17.

Gene expression complex networks: synthesis, identification, and analysis.

Lopes FM, Cesar RM, Costa Lda F.

J Comput Biol. 2011 Oct;18(10):1353-67. doi: 10.1089/cmb.2010.0118. Epub 2011 May 6.

PMID:
21548810
18.

Genomic approaches in dissecting complex biological pathways.

Sun N, Zhao H.

Pharmacogenomics. 2004 Mar;5(2):163-79. Review.

PMID:
15016608
19.

Predicting novel pathways in genome-scale metabolic networks.

Schuster S, de Figueiredo LF, Kaleta C.

Biochem Soc Trans. 2010 Oct;38(5):1202-5. doi: 10.1042/BST0381202.

PMID:
20863284
20.

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

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