Stochastic Simulation Algorithm for Gene Regulatory Networks with Multiple Binding Sites
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Miha Mraz | Nikolaj Zimic | Miha Moskon | Mattia Petroni | N. Zimic | M. Mraz | M. Moškon | M. Petroni
[1] G. Hayward,et al. Definition of the sequence requirements for binding of the EBNA-1 protein to its palindromic target sites in Epstein-Barr virus DNA , 1990, Journal of virology.
[2] Martin Fussenegger,et al. Emerging biomedical applications of synthetic biology , 2011, Nature Reviews Genetics.
[3] J. Pagano,et al. Expression of EBNA-1 mRNA Is Regulated by Cell Cycle during Epstein-Barr Virus Type I Latency , 1999, Journal of Virology.
[4] Ernst Dieter Gilles,et al. Exact model reduction of combinatorial reaction networks , 2008, BMC Systems Biology.
[5] L. Frappier,et al. Functional Analyses of the EBNA1 Origin DNA Binding Protein of Epstein-Barr Virus , 2000, Journal of Virology.
[6] D. Gillespie. A General Method for Numerically Simulating the Stochastic Time Evolution of Coupled Chemical Reactions , 1976 .
[7] Jens Boch,et al. Breaking the Code of DNA Binding Specificity of TAL-Type III Effectors , 2009, Science.
[8] Linda R. Petzold,et al. Stochastic modelling of gene regulatory networks , 2005 .
[9] Erik Aurell,et al. Epstein-Barr virus latency switch in human B-cells: a physico-chemical model , 2007, BMC Systems Biology.
[10] Miha Mraz,et al. Hybrid discrete algorithm for the modelling of gene regulatory networks , 2013 .
[11] E. Aurell,et al. Cooperative action in eukaryotic gene regulation: physical properties of a viral example. , 2007, Physical review. E, Statistical, nonlinear, and soft matter physics.
[12] M. Magnasco,et al. Decay rates of human mRNAs: correlation with functional characteristics and sequence attributes. , 2003, Genome research.
[13] H. Varmus,et al. Epstein-Barr Virus: An Important Vaccine Target for Cancer Prevention , 2011, Science Translational Medicine.
[14] J. Gregg,et al. Allele-specific Holliday junction formation: a new mechanism of allelic discrimination for SNP scoring. , 2003, Genome research.
[15] Miha Mraz,et al. Modelling and Analysing the Information Processing Capabilities of Simple Biological Systems , 2012 .
[16] E. Robertson. Epstein-barr virus : latency and transformation , 2010 .
[17] Ahmad S. Khalil,et al. Synthetic biology: applications come of age , 2010, Nature Reviews Genetics.
[18] Yang Cao,et al. Multiscale stochastic simulation algorithm with stochastic partial equilibrium assumption for chemically reacting systems , 2005 .
[19] K. Hayashi,et al. Sequence Analysis and Variation of EBNA-1 in Epstein-Barr Virus-Related Herpesvirus of Cynomolgus Monkey , 2000, Intervirology.
[20] A Ciechanover,et al. Inhibition of ubiquitin/proteasome-dependent protein degradation by the Gly-Ala repeat domain of the Epstein-Barr virus nuclear antigen 1. , 1997, Proceedings of the National Academy of Sciences of the United States of America.
[21] E Weinan,et al. Nested stochastic simulation algorithms for chemical kinetic systems with multiple time scales , 2007, J. Comput. Phys..
[22] Andreja Majerle,et al. Designable DNA-binding domains enable construction of logic circuits in mammalian cells. , 2014, Nature chemical biology.
[23] Linda R Petzold,et al. The slow-scale stochastic simulation algorithm. , 2005, The Journal of chemical physics.
[24] L. Young,et al. Epstein–Barr virus: 40 years on , 2004, Nature Reviews Cancer.
[25] Naoto Hayashi,et al. Spectrum of Epstein-Barr virus-related diseases: a pictorial review , 2009, Japanese Journal of Radiology.
[26] L. Frappier,et al. Identification of EBNA1 amino acid sequences required for the interaction of the functional elements of the Epstein-Barr virus latent origin of DNA replication , 1993, Journal of virology.
[27] D. Gillespie. Exact Stochastic Simulation of Coupled Chemical Reactions , 1977 .
[28] A. Bogdanove,et al. TAL Effectors: Customizable Proteins for DNA Targeting , 2011, Science.