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Items: 1 to 20 of 90

1.

From systems to structure: bridging networks and mechanism.

Fraser JS, Gross JD, Krogan NJ.

Mol Cell. 2013 Jan 24;49(2):222-31. doi: 10.1016/j.molcel.2013.01.003. Review.

2.

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
3.

Omics meet networks - using systems approaches to infer regulatory networks in plants.

Moreno-Risueno MA, Busch W, Benfey PN.

Curr Opin Plant Biol. 2010 Apr;13(2):126-31. doi: 10.1016/j.pbi.2009.11.005. Epub 2009 Dec 28. Review.

4.

Integrative approaches for finding modular structure in biological networks.

Mitra K, Carvunis AR, Ramesh SK, Ideker T.

Nat Rev Genet. 2013 Oct;14(10):719-32. doi: 10.1038/nrg3552. Review.

5.

Use of systems biology to decipher host-pathogen interaction networks and predict biomarkers.

Dix A, Vlaic S, Guthke R, Linde J.

Clin Microbiol Infect. 2016 Jul;22(7):600-6. doi: 10.1016/j.cmi.2016.04.014. Epub 2016 Apr 22. Review.

6.

Systems approaches to identifying gene regulatory networks in plants.

Long TA, Brady SM, Benfey PN.

Annu Rev Cell Dev Biol. 2008;24:81-103. doi: 10.1146/annurev.cellbio.24.110707.175408. Review.

7.

Bridging the gaps in systems biology.

Cvijovic M, Almquist J, Hagmar J, Hohmann S, Kaltenbach HM, Klipp E, Krantz M, Mendes P, Nelander S, Nielsen J, Pagnani A, Przulj N, Raue A, Stelling J, Stoma S, Tobin F, Wodke JA, Zecchina R, Jirstrand M.

Mol Genet Genomics. 2014 Oct;289(5):727-34. doi: 10.1007/s00438-014-0843-3. Epub 2014 Apr 13. Review.

PMID:
24728588
8.

Differential network biology.

Ideker T, Krogan NJ.

Mol Syst Biol. 2012 Jan 17;8:565. doi: 10.1038/msb.2011.99. Review.

9.

Pathways and promoter networks analysis provides systems topology for systems biology approaches.

Nelson PJ, Werner T.

Semin Nephrol. 2010 Sep;30(5):477-86. doi: 10.1016/j.semnephrol.2010.07.005. Review.

PMID:
21044759
10.

Multi-scale modeling of gene regulatory networks via integration of temporal and topological biological data.

Dimitrakopoulos G, Sgarbas K, Dimitrakopoulou K, Dragomir A, Bezerianos A, Maraziotis IA.

Conf Proc IEEE Eng Med Biol Soc. 2012;2012:1242-5. doi: 10.1109/EMBC.2012.6346162.

PMID:
23366123
11.

Network thermodynamics in the post-genomic era.

Soh KC, Hatzimanikatis V.

Curr Opin Microbiol. 2010 Jun;13(3):350-7. doi: 10.1016/j.mib.2010.03.001. Epub 2010 Apr 6. Review.

PMID:
20378394
12.

Optimality and thermodynamics determine the evolution of transcriptional regulatory networks.

Avila-Elchiver M, Nagrath D, Yarmush ML.

Mol Biosyst. 2012 Feb;8(2):511-30. doi: 10.1039/c1mb05177f. Epub 2011 Nov 10.

13.

Reverse engineering systems models of regulation: discovery, prediction and mechanisms.

Ashworth J, Wurtmann EJ, Baliga NS.

Curr Opin Biotechnol. 2012 Aug;23(4):598-603. doi: 10.1016/j.copbio.2011.12.005. Epub 2011 Dec 28. Review.

14.

Cancer networks and beyond: interpreting mutations using the human interactome and protein structure.

Gulati S, Cheng TM, Bates PA.

Semin Cancer Biol. 2013 Aug;23(4):219-26. doi: 10.1016/j.semcancer.2013.05.002. Epub 2013 May 13. Review.

PMID:
23680723
15.

Evolutionary principles underlying structure and response dynamics of cellular networks.

Steinacher A, Soyer OS.

Adv Exp Med Biol. 2012;751:225-47. doi: 10.1007/978-1-4614-3567-9_11. Review.

PMID:
22821461
16.

Elucidating common structural features of human pathogenic variations using large-scale atomic-resolution protein networks.

Das J, Lee HR, Sagar A, Fragoza R, Liang J, Wei X, Wang X, Mort M, Stenson PD, Cooper DN, Yu H.

Hum Mutat. 2014 May;35(5):585-93. doi: 10.1002/humu.22534. Epub 2014 Apr 7.

17.

Gradient descent optimization in gene regulatory pathways.

Das M, Mukhopadhyay S, De RK.

PLoS One. 2010 Sep 3;5(9):e12475. doi: 10.1371/journal.pone.0012475.

18.

Assessment of crosstalks between the Snf1 kinase complex and sphingolipid metabolism in S. cerevisiae via systems biology approaches.

Borklu Yucel E, Ulgen KO.

Mol Biosyst. 2013 Nov;9(11):2914-31. doi: 10.1039/c3mb70248k.

PMID:
24056632
19.

Organization principles in genetic interaction networks.

Jacobs C, Segrè D.

Adv Exp Med Biol. 2012;751:53-78. doi: 10.1007/978-1-4614-3567-9_3. Review.

PMID:
22821453
20.

Interaction networks as a tool to investigate the mechanisms of aging.

Chautard E, Thierry-Mieg N, Ricard-Blum S.

Biogerontology. 2010 Aug;11(4):463-73. doi: 10.1007/s10522-010-9268-5. Epub 2010 Mar 7.

PMID:
20213321

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