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Items: 19

1.

Noise Expands the Response Range of the Bacillus subtilis Competence Circuit.

Mugler A, Kittisopikul M, Hayden L, Liu J, Wiggins CH, Süel GM, Walczak AM.

PLoS Comput Biol. 2016 Mar 22;12(3):e1004793. doi: 10.1371/journal.pcbi.1004793. eCollection 2016 Mar.

2.

Potential unsatisfiability of cyclic constraints on stochastic biological networks biases selection towards hierarchical architectures.

Smith C, Pechuan X, Puzio RS, Biro D, Bergman A.

J R Soc Interface. 2015 Jul 6;12(108):20150179. doi: 10.1098/rsif.2015.0179.

3.

Stochastic simulation in systems biology.

Székely T Jr, Burrage K.

Comput Struct Biotechnol J. 2014 Oct 30;12(20-21):14-25. doi: 10.1016/j.csbj.2014.10.003. eCollection 2014 Nov. Review.

4.

Nonlinear signalling networks and cell-to-cell variability transform external signals into broadly distributed or bimodal responses.

Dobrzyński M, Nguyen LK, Birtwistle MR, von Kriegsheim A, Blanco Fernández A, Cheong A, Kolch W, Kholodenko BN.

J R Soc Interface. 2014 Sep 6;11(98):20140383. doi: 10.1098/rsif.2014.0383.

5.

Cellular noise and information transmission.

Levchenko A, Nemenman I.

Curr Opin Biotechnol. 2014 Aug;28:156-64. doi: 10.1016/j.copbio.2014.05.002. Epub 2014 Jun 9. Review.

6.

Noise minimisation in gene expression switches.

Monteoliva D, McCarthy CB, Diambra L.

PLoS One. 2013 Dec 23;8(12):e84020. doi: 10.1371/journal.pone.0084020. eCollection 2013.

7.

Spatial partitioning improves the reliability of biochemical signaling.

Mugler A, Tostevin F, ten Wolde PR.

Proc Natl Acad Sci U S A. 2013 Apr 9;110(15):5927-32. doi: 10.1073/pnas.1218301110. Epub 2013 Mar 25.

8.

An effective method for computing the noise in biochemical networks.

Zhang J, Nie Q, He M, Zhou T.

J Chem Phys. 2013 Feb 28;138(8):084106. doi: 10.1063/1.4792444.

9.

Ribozyme-based insulator parts buffer synthetic circuits from genetic context.

Lou C, Stanton B, Chen YJ, Munsky B, Voigt CA.

Nat Biotechnol. 2012 Nov;30(11):1137-42. doi: 10.1038/nbt.2401. Epub 2012 Oct 3.

10.

Cooperative binding of transcription factors promotes bimodal gene expression response.

Gutierrez PS, Monteoliva D, Diambra L.

PLoS One. 2012;7(9):e44812. doi: 10.1371/journal.pone.0044812. Epub 2012 Sep 12.

11.

Computation of steady-state probability distributions in stochastic models of cellular networks.

Hallen M, Li B, Tanouchi Y, Tan C, West M, You L.

PLoS Comput Biol. 2011 Oct;7(10):e1002209. doi: 10.1371/journal.pcbi.1002209. Epub 2011 Oct 13.

12.

Statistical method for revealing form-function relations in biological networks.

Mugler A, Grinshpun B, Franks R, Wiggins CH.

Proc Natl Acad Sci U S A. 2011 Jan 11;108(2):446-51. doi: 10.1073/pnas.1008898108. Epub 2010 Dec 23.

13.

Bimodal gene expression in noncooperative regulatory systems.

Ochab-Marcinek A, Tabaka M.

Proc Natl Acad Sci U S A. 2010 Dec 21;107(51):22096-101. doi: 10.1073/pnas.1008965107. Epub 2010 Dec 6.

14.

Defining cooperativity in gene regulation locally through intrinsic noise.

Maienschein-Cline M, Warmflash A, Dinner AR.

IET Syst Biol. 2010 Nov;4(6):379-92. doi: 10.1049/iet-syb.2009.0070.

15.

Information-optimal transcriptional response to oscillatory driving.

Mugler A, Walczak AM, Wiggins CH.

Phys Rev Lett. 2010 Jul 30;105(5):058101. Epub 2010 Jul 29.

16.

Fundamental limits on the suppression of molecular fluctuations.

Lestas I, Vinnicombe G, Paulsson J.

Nature. 2010 Sep 9;467(7312):174-8. doi: 10.1038/nature09333.

17.

Information processing by biochemical networks: a dynamic approach.

Bowsher CG.

J R Soc Interface. 2011 Feb 6;8(55):186-200. doi: 10.1098/rsif.2010.0287. Epub 2010 Aug 4.

18.

Information processing and signal integration in bacterial quorum sensing.

Mehta P, Goyal S, Long T, Bassler BL, Wingreen NS.

Mol Syst Biol. 2009;5:325. doi: 10.1038/msb.2009.79. Epub 2009 Nov 17.

19.

Spectral solutions to stochastic models of gene expression with bursts and regulation.

Mugler A, Walczak AM, Wiggins CH.

Phys Rev E Stat Nonlin Soft Matter Phys. 2009 Oct;80(4 Pt 1):041921. Epub 2009 Oct 20.

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