Scientific publications by the lab ...

1.     Daniel A. Charlebois, Nezar Abdennur, Mads Kærn. Gene Expression Noise Facilitates Adaptation and Drug Resistance Independently of Mutations. Phys. Rev. Lett. 107, doi:10.1103/PhysRevLett.107.218101 (2011).
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2.     Hilary Phenix, Katy Morin, Cory Batenchuk, Jacob Parker, Vida Abedi, Liu Yang, Lioudmila Tepliakova, Theodore J. Perkins, Mads Kærn. Quantitative Epistasis Analysis and Pathway Inference from Genetic Interaction Data. PLoS. Comput. Biol. 7, doi:10.1371/journal.pcbi.1002048 (2011).
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3.   Daniel A. Charlebois, Theodore J. Perkins, Mads Kærn. Stochastic Gene Expression and the Processing and Propagation of Noisy Signals in Genetic Networks. In: Information Processing and Biological Systems. A.S. Ribeiro and S. Niiranen (Eds). Springer-Verlag (2011).
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4.     Daniel A. Charlebois, Jukka Intosalmi, Dawn Fraser, Mads Kærn. An Algorithm for the Stochastic Simulation of Gene Expression and Heterogeneous Population Dynamics. Commun. Comput. Phys. 9, 89-112 (2011).
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5.     Cory Batenchuk, Lioudmila Tepliakova, Mads Kærn. Identification of response-modulated genetic interactions by sensitivity-based epistatic analysis. BMC Genom., 11:493 (2010).
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6.     Daniil Zhuravel, Dawn Fraser, Simon St-Pierre, Lioudmila Tepliakova, Wyming L. Pang, Jeff Hasty & Mads Kærn. Phenotypic impact of regulatory noise in cellular stress-response pathways. Syst. Synth. Biol., doi: 10.1007/s11693-010-9055-2 (2010).
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7.     C. Song, H Phenix, V. Abedi, M. Scott, B.P. Ingalls, M. Kærn & T.J. Perkins. Estimating the Stochastic Bifurcation Structure of Cellular Networks. PLoS Comput. Biol., 6, e1000699 (2010).
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8.     Dawn Fraser & Mads Kærn. A chance at survival: gene expression noise and phenotypic diversification strategies. Mol. Microbiol., 71, 1333-1340 (2009).
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9.     Robin E.C. Lee, Lawrence G. Puente, Mads Kærn, & Lynn A. Megeney. A non-death role of the yeast metacaspase: Yca1p alters cell cycle dynamics. PLoS ONE, doi: 10.1371/journal.pone.0002956 (2008).
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10.     Matthew Scott, Brian Ingalls, Mads Kærn. Estimations of intrinsic and extrinsic noise in models of nonlinear genetic networks. CHAOS, doi: 10.1063/1.2211787 (2006).
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11.     Kristin Baetz & Mads Kærn. Predictable trends in protein noise. Nat. Genet., 38, 610-611 (2006).
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12.     Mads Kærn & Ron Weiss. Synthetic gene regulatory systems. In: Systems Modeling in Cellular Biology. Z. Sallasi et al. (Eds.). MIT Press (2006).
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13.     Daniil Zhuravel & Mads Kaern. Physics take another stab at biological control mechanisms. Mol. Sys. Biol., doi: 10.1038/msb4100037 (2005).
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14.     Mads Kærn, Timothy R. Elston, William J. Blake & James J. Collins. Stochasticity in gene expression: From theories to phenotypes. Nat. Rev. Genet., 6, 451-464 (2005).
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Earlier publications by Mads Kærn

1.       Alexey Kuznetsov, Mads Kærn & Nancy Kopell. Synchrony in a population of hysteresis-based genetic oscillators. SIAM J. Appl. Math., 65, 392-425 (2005).

2.      Hideki Kobayashi*, Mads Kærn*, Michihiro Araki, Kristy Chung, Timothy S. Gardner, Charles R. Cantor & James J. Collins. Programmable cells: Interfacing natural and engineered gene networks. Proc. Natl. Acad. Sci. USA, 22, 8418-8419 (2004). *Shared first authorship.

3.      Mads Kærn*, David Miguez*, Alberto Munuzuri & Michael Menzinger. Control of pattern formation by a clock-and-wavefront mechanism. Biophys. Chem., 110, 231-238 (2004). *Shared first authorship.

4.      Mads Kærn, William J. Blake & James J. Collins. The engineering of gene regulatory networks. Annu. Rev. Biomed Eng., 5, 179-206 (2003).

5.      William J. Blake*, Mads Kærn*, Charles R. Cantor & James J. Collins. Noise in eukaryotic gene expression. Nature, 422, 633-637 (2003). *Shared first authorship.

6.      Mads Kærn & Michael Menzinger. Reply to the 'Comment on "Controlled pattern formation in the CDIMA reaction with a moving boundary of illumination" ' Phys. Chem. Chem. Phys., 5, 431-431 (2003).

7.      Mads Kærn & Michael Menzinger. Experiments on flow-distributed oscillations in the Belousov-Zhabotinsky reaction. J. Phys. Chem. A, 106, 4897-4903 (2002).

8.      Mads Kærn & Michael Menzinger. Stabilization of stationary excitation pulses in an open flow without long-range inhibition. Phys. Rev. E, 65, 046202 (2002).

9.      Mads Kærn & Michael Menzinger. Propagation of excitation pulses and autocatalytic fronts in packed-bed reactors. J. Phys. Chem., 106, 3751-3758 (2002).

10.   Mads Kærn, Razvan Satnoianu, Alberto P. Munuzuri & Michael Menzinger. Controlled pattern formation in the CDIMA reaction with a moving boundary of illumination. Phys. Chem. Chem. Phys., 4, 1315-1319 (2002).

11.   Mads Kærn. The chemical basis of gene expression waves in the presomitic mesoderm. In: The origins and fate of somites. E. Sanders and C. Ordahl (Eds). Plenum Press (2001).

12.   Mads Kærn, Michael Menzinger, Razvan Satnoianu & Axel Hunding. Chemical waves in open flows of active media: their relevance to axial segmentation in biology. Faraday Discuss., 120, 295-312 (2001).

13.   Mads Kærn, Michael Menzinger & Axel Hunding. Segmentation and somitogenesis derived from phase dynamics in growing oscillatory media. J. Theor. Biol., 207, 473-493 (2000).

14.   Mads Kærn & Michael Menzinger. Reply to "Comment on 'Flow-distributed oscillations: stationary chemical waves in a reacting flow'". Phys. Rev. E 62, 2994-2995 (2000).

15.   Mads Kærn, Michael Menzinger & Axel Hunding. A chemical flow system mimics waves of gene expression during segmentation. Biophys. Chem., 87, 121-126 (2000).

16.   Mads Kærn & Michael Menzinger. Pulsating wave propagation in reactive flow: Flow-distributed oscillations. Phys. Rev E, 61, 3334-3338 (2000).

17.   Mads Kærn & Axel Hunding. The effect of slow allosteric transitions in a coupled biochemical oscillator model. J. Theor. Biol., 198 269-281 (1999).

18.   Mads Kærn & Axel Hunding. Dynamics of the cell cycle engine: Cdk2-cyclin E and the transition into mitosis. J. Theor. Biol., 193, 47-57 (1998).

19.   Axel Hunding & Mads Kærn. The effect of slow allosteric transitions in a simple biochemical oscillator model. J. Theor. Biol., 191, 309-322 (1998).