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Radek Erban, Ph.D. - Publications

Affiliations: 
Mathematical Institute University of Oxford, Oxford, United Kingdom 
 2005 University of Minnesota, Twin Cities, Minneapolis, MN 
Area:
pattern formation in development, calcium dynamics in neural tissue, cell-based and continuum descriptions of cell and tissue movement, analysis of complex metabolic and gene-control networks, and mathematical models of tumor angiogenesis
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69 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2019 Erban R. Coarse-graining molecular dynamics: stochastic models with non-Gaussian force distributions. Journal of Mathematical Biology. PMID 31541299 DOI: 10.1007/S00285-019-01433-5  0.417
2019 Kang HW, Erban R. Multiscale Stochastic Reaction-Diffusion Algorithms Combining Markov Chain Models with Stochastic Partial Differential Equations. Bulletin of Mathematical Biology. PMID 31165406 DOI: 10.1007/S11538-019-00613-0  0.46
2019 Gunaratne RS, Wilson DB, Flegg MB, Erban R. Multi-resolution dimer models in heat baths with short-range and long-range interactions. Interface Focus. 9: 20180070. PMID 31065341 DOI: 10.1098/Rsfs.2018.0070  0.724
2019 Erban R, Harris S, Potestio R. Multi-resolution simulations of intracellular processes Interface Focus. 9: 20190028. DOI: 10.1098/Rsfs.2019.0028  0.315
2018 Rolls E, Erban R. Multi-resolution polymer Brownian dynamics with hydrodynamic interactions. The Journal of Chemical Physics. 148: 194111. PMID 30307198 DOI: 10.1063/1.5018595  0.36
2018 Plesa T, Zygalakis KC, Anderson DF, Erban R. Noise control for molecular computing. Journal of the Royal Society, Interface. 15. PMID 29997258 DOI: 10.1098/Rsif.2018.0199  0.322
2018 Li F, Chen M, Erban R, Cao Y. Reaction time for trimolecular reactions in compartment-based reaction-diffusion models. The Journal of Chemical Physics. 148: 204108. PMID 29865852 DOI: 10.1063/1.5024927  0.408
2018 PLESA T, ERBAN R, OTHMER HG. Noise-induced mixing and multimodality in reaction networks European Journal of Applied Mathematics. 30: 887-911. DOI: 10.1017/S0956792518000517  0.594
2017 Rolls E, Togashi Y, Erban R. Varying the Resolution of the Rouse Model on Temporal and Spatial Scales: Application to Multiscale Modeling of DNA Dynamics Multiscale Modeling & Simulation. 15: 1672-1693. DOI: 10.1137/16M108700X  0.361
2017 Cucuringu M, Erban R. ADM-CLE Approach for Detecting Slow Variables in Continuous Time Markov Chains and Dynamic Data Siam Journal On Scientific Computing. 39: B76-B101. DOI: 10.1137/15M1017120  0.402
2017 Robinson M, Luo C, Farrell PE, Erban R, Majumdar A. From molecular to continuum modelling of bistable liquid crystal devices Liquid Crystals. 44: 2267-2284. DOI: 10.1080/02678292.2017.1290284  0.639
2016 Franz B, Taylor-King JP, Yates C, Erban R. Hard-sphere interactions in velocity-jump models. Physical Review. E. 94: 012129. PMID 27575098 DOI: 10.1103/Physreve.94.012129  0.689
2016 Dobramysl U, Papoian GA, Erban R. Steric Effects Induce Geometric Remodeling of Actin Bundles in Filopodia. Biophysical Journal. 110: 2066-75. PMID 27166814 DOI: 10.1016/J.Bpj.2016.03.013  0.74
2016 Erban R. Coupling all-atom molecular dynamics simulations of ions in water with Brownian dynamics. Proceedings. Mathematical, Physical, and Engineering Sciences / the Royal Society. 472: 20150556. PMID 27118886 DOI: 10.1098/Rspa.2015.0556  0.383
2016 Jonathan Chapman S, Erban R, Isaacson SA. Reactive boundary conditions as limits of interaction potentials for brownian and langevin dynamics Siam Journal On Applied Mathematics. 76: 368-390. DOI: 10.1137/15M1030662  0.367
2016 Erban R, Haškovec J, Sun Y. A Cucker--Smale Model with Noise and Delay Siam Journal On Applied Mathematics. 76: 1535-1557. DOI: 10.1137/15M1030467  0.389
2016 Dobramysl U, Rüdiger S, Erban R. Particle-Based Multiscale Modeling of Calcium Puff Dynamics Multiscale Modeling & Simulation. 14: 997-1016. DOI: 10.1137/15M1015030  0.741
2016 Cotter SL, Erban R. Error analysis of diffusion approximation methods for multiscale systems in reaction kinetics Siam Journal On Scientific Computing. 38: B144-B163. DOI: 10.1137/14100052X  0.624
2016 Duncan A, Erban R, Zygalakis K. Hybrid framework for the simulation of stochastic chemical kinetics Journal of Computational Physics. 326: 398-419. DOI: 10.1016/J.Jcp.2016.08.034  0.624
2016 Plesa T, Vejchodský T, Erban R. Chemical reaction systems with a homoclinic bifurcation: an inverse problem Journal of Mathematical Chemistry. 54: 1884-1915. DOI: 10.1007/S10910-016-0656-1  0.338
2015 Flegga MB, Hellander S, Erban R. Convergence of methods for coupling of microscopic and mesoscopic reaction-diffusion simulations. Journal of Computational Physics. 289: 1-17. PMID 26568640 DOI: 10.1016/J.Jcp.2015.01.030  0.381
2015 Liao S, Vejchodský T, Erban R. Tensor methods for parameter estimation and bifurcation analysis of stochastic reaction networks. Journal of the Royal Society, Interface / the Royal Society. 12. PMID 26063822 DOI: 10.1098/Rsif.2015.0233  0.364
2015 Duncan A, Liao S, Vejchodský T, Erban R, Grima R. Noise-induced multistability in chemical systems: Discrete versus continuum modeling. Physical Review. E, Statistical, Nonlinear, and Soft Matter Physics. 91: 042111. PMID 25974443 DOI: 10.1103/Physreve.91.042111  0.527
2015 Robinson M, Andrews SS, Erban R. Multiscale reaction-diffusion simulations with Smoldyn. Bioinformatics (Oxford, England). 31: 2406-8. PMID 25788627 DOI: 10.1093/Bioinformatics/Btv149  0.617
2014 Sun Y, Lin W, Erban R. Time delay can facilitate coherence in self-driven interacting-particle systems. Physical Review. E, Statistical, Nonlinear, and Soft Matter Physics. 90: 062708. PMID 25615130 DOI: 10.1103/Physreve.90.062708  0.32
2014 Cao Y, Erban R. Stochastic Turing patterns: analysis of compartment-based approaches. Bulletin of Mathematical Biology. 76: 3051-69. PMID 25421150 DOI: 10.1007/S11538-014-0044-6  0.429
2014 Erban R. From molecular dynamics to Brownian dynamics. Proceedings. Mathematical, Physical, and Engineering Sciences / the Royal Society. 470: 20140036. PMID 25002825 DOI: 10.1098/Rspa.2014.0036  0.396
2014 Robinson M, Flegg M, Erban R. Adaptive two-regime method: application to front propagation. The Journal of Chemical Physics. 140: 124109. PMID 24697426 DOI: 10.1063/1.4868652  0.794
2014 Erban R, Othmer HG. Editorial: special issue on stochastic modelling of reaction-diffusion processes in biology. Bulletin of Mathematical Biology. 76: 761-5. PMID 24402472 DOI: 10.1007/S11538-013-9929-Z  0.63
2014 Franz B, Xue C, Painter KJ, Erban R. Travelling waves in hybrid chemotaxis models. Bulletin of Mathematical Biology. 76: 377-400. PMID 24347253 DOI: 10.1007/S11538-013-9924-4  0.68
2014 Erban R, Flegg MB, Papoian GA. Multiscale stochastic reaction-diffusion modeling: application to actin dynamics in filopodia. Bulletin of Mathematical Biology. 76: 799-818. PMID 23640574 DOI: 10.1007/S11538-013-9844-3  0.762
2014 Flegg MB, Chapman SJ, Zheng L, Erban R. Analysis of the two-regime method on square meshes Siam Journal On Scientific Computing. 36: B561-B588. DOI: 10.1137/130915844  0.788
2014 Chen W, Erban R, Chapman SJ. From Brownian dynamics to Markov chain: An ion channel example Siam Journal On Applied Mathematics. 74: 208-235. DOI: 10.1137/120882780  0.531
2014 Taylor-King JP, Franz B, Yates CA, Erban R. Mathematical modelling of turning delays in swarm robotics Ima Journal of Applied Mathematics (Institute of Mathematics and Its Applications). 80: 1454-1474. DOI: 10.1093/Imamat/Hxv001  0.66
2013 Schlackow M, Marguerat S, Proudfoot NJ, Bähler J, Erban R, Gullerova M. Genome-wide analysis of poly(A) site selection in Schizosaccharomyces pombe. Rna (New York, N.Y.). 19: 1617-31. PMID 24152550 DOI: 10.1261/Rna.040675.113  0.739
2013 Flegg MB, Rüdiger S, Erban R. Diffusive spatio-temporal noise in a first-passage time model for intracellular calcium release. The Journal of Chemical Physics. 138: 154103. PMID 23614408 DOI: 10.1063/1.4796417  0.731
2013 Franz B, Flegg MB, Jonathan Chapman S, Erban R. Multiscale reaction-diffusion algorithms: PDE-assisted Brownian dynamics Siam Journal On Applied Mathematics. 73: 1224-1247. DOI: 10.1137/120882469  0.784
2013 Cotter SL, Vejchodský T, Erban R. Adaptive finite element method assisted by stochastic simulation of chemical systems Siam Journal On Scientific Computing. 35: B107-B131. DOI: 10.1137/120877374  0.626
2013 Franz B, Erban R. Hybrid modelling of individual movement and collective behaviour Lecture Notes in Mathematics. 2071: 129-157. DOI: 10.1007/978-3-642-35497-7_5  0.483
2012 Székely T, Burrage K, Erban R, Zygalakis KC. A higher-order numerical framework for stochastic simulation of chemical reaction systems. Bmc Systems Biology. 6: 85. PMID 23256696 DOI: 10.1186/1752-0509-6-85  0.584
2012 Yates CA, Baker RE, Erban R, Maini PK. Going from microscopic to macroscopic on nonuniform growing domains. Physical Review. E, Statistical, Nonlinear, and Soft Matter Physics. 86: 021921. PMID 23005799 DOI: 10.1103/Physreve.86.021921  0.587
2012 Luo C, Majumdar A, Erban R. Multistability in planar liquid crystal wells. Physical Review. E, Statistical, Nonlinear, and Soft Matter Physics. 85: 061702. PMID 23005109 DOI: 10.1103/Physreve.85.061702  0.494
2012 Flegg MB, Chapman SJ, Erban R. The two-regime method for optimizing stochastic reaction-diffusion simulations. Journal of the Royal Society, Interface / the Royal Society. 9: 859-68. PMID 22012973 DOI: 10.1098/Rsif.2011.0574  0.767
2012 Erban R, Haskovec J. From individual to collective behaviour of coupled velocity jump processes: A locust example Kinetic and Related Models. 5: 817-842. DOI: 10.3934/Krm.2012.5.817  0.423
2012 Klingbeil G, Erban R, Giles M, Maini PK. Fat versus thin threading approach on GPUs: Application to stochastic simulation of chemical reactions Ieee Transactions On Parallel and Distributed Systems. 23: 280-287. DOI: 10.1109/Tpds.2011.157  0.734
2011 Cotter SL, Zygalakis KC, Kevrekidis IG, Erban R. A constrained approach to multiscale stochastic simulation of chemically reacting systems. The Journal of Chemical Physics. 135: 094102. PMID 21913748 DOI: 10.1063/1.3624333  0.708
2011 Klingbeil G, Erban R, Giles M, Maini PK. STOCHSIMGPU: parallel stochastic simulation for the Systems Biology Toolbox 2 for MATLAB. Bioinformatics (Oxford, England). 27: 1170-1. PMID 21357575 DOI: 10.1093/Bioinformatics/Btr068  0.741
2011 Xue C, Hwang HJ, Painter KJ, Erban R. Travelling waves in hyperbolic chemotaxis equations. Bulletin of Mathematical Biology. 73: 1695-733. PMID 20953726 DOI: 10.1007/S11538-010-9586-4  0.544
2011 Lipková J, Zygalakis KC, Jonathan Chapman S, Erban R. Analysis of Brownian dynamics simulations of reversible bimolecular reactions Siam Journal On Applied Mathematics. 71: 714-730. DOI: 10.1137/100794213  0.408
2010 Escudero C, Yates CA, Buhl J, Couzin ID, Erban R, Kevrekidis IG, Maini PK. Ergodic directional switching in mobile insect groups. Physical Review. E, Statistical, Nonlinear, and Soft Matter Physics. 82: 011926. PMID 20866667 DOI: 10.1103/Physreve.82.011926  0.643
2010 Baker RE, Yates CA, Erban R. From microscopic to macroscopic descriptions of cell migration on growing domains. Bulletin of Mathematical Biology. 72: 719-62. PMID 19862577 DOI: 10.1007/S11538-009-9467-X  0.59
2010 Cominetti O, Matzavinos A, Samarasinghe S, Kulasiri D, Liu S, Maini PK, Erban R. DifFUZZY: a fuzzy clustering algorithm for complex datasets International Journal of Computational Intelligence in Bioinformatics and Systems Biology. 1: 402. DOI: 10.1504/IJCIBSB.2010.038222  0.615
2009 Singer A, Erban R, Kevrekidis IG, Coifman RR. Detecting intrinsic slow variables in stochastic dynamical systems by anisotropic diffusion maps. Proceedings of the National Academy of Sciences of the United States of America. 106: 16090-5. PMID 19706457 DOI: 10.1073/Pnas.0905547106  0.57
2009 Erban R, Chapman SJ. Stochastic modelling of reaction-diffusion processes: algorithms for bimolecular reactions. Physical Biology. 6: 046001. PMID 19700812 DOI: 10.1088/1478-3975/6/4/046001  0.439
2009 Yates CA, Erban R, Escudero C, Couzin ID, Buhl J, Kevrekidis IG, Maini PK, Sumpter DJ. Inherent noise can facilitate coherence in collective swarm motion. Proceedings of the National Academy of Sciences of the United States of America. 106: 5464-9. PMID 19336580 DOI: 10.1073/Pnas.0811195106  0.665
2009 Erban R, Chapman SJ, Kevrekidis IG, Vejchodský T. Analysis of a stochastic chemical system close to a SNIPER bifurcation of its mean-field model Siam Journal On Applied Mathematics. 70: 984-1016. DOI: 10.1137/080731360  0.579
2009 Xue C, Othmer HG, Erban R. From individual to collective behavior of unicellular organisms: Recent results and open problems Aip Conference Proceedings. 1167: 3-14. DOI: 10.1063/1.3246413  0.595
2007 Erban R, Chapman SJ. Time scale of random sequential adsorption. Physical Review. E, Statistical, Nonlinear, and Soft Matter Physics. 75: 041116. PMID 17500874 DOI: 10.1103/Physreve.75.041116  0.324
2007 Erban R, Frewen TA, Wang X, Elston TC, Coifman R, Nadler B, Kevrekidis IG. Variable-free exploration of stochastic models: a gene regulatory network example. The Journal of Chemical Physics. 126: 155103. PMID 17461667 DOI: 10.1063/1.2718529  0.567
2007 Erban R, Chapman SJ. Reactive boundary conditions for stochastic simulations of reaction-diffusion processes. Physical Biology. 4: 16-28. PMID 17406082 DOI: 10.1088/1478-3975/4/1/003  0.43
2007 Erban R, Othmer HG. Taxis equations for amoeboid cells. Journal of Mathematical Biology. 54: 847-85. PMID 17273880 DOI: 10.1007/S00285-007-0070-1  0.596
2007 Erban R, Chapman SJ, Fisher KD, Kevrekidis IG, Seymour LW. Dynamics of polydisperse irreversible adsorption: A pharmacological example Mathematical Models and Methods in Applied Sciences. 17: 759-781. DOI: 10.1142/S0218202507002091  0.499
2007 Kavousanakis ME, Erban R, Boudouvis AG, Gear CW, Kevrekidis IG. Projective and coarse projective integration for problems with continuous symmetries Journal of Computational Physics. 225: 382-407. DOI: 10.1016/J.Jcp.2006.12.003  0.545
2006 Qiao L, Erban R, Kelley CT, Kevrekidis IG. Spatially distributed stochastic systems: Equation-free and equation-assisted preconditioned computations. The Journal of Chemical Physics. 125: 204108. PMID 17144691 DOI: 10.1063/1.2372492  0.586
2006 Erban R, Kevrekidis IG, Adalsteinsson D, Elston TC. Gene regulatory networks: a coarse-grained, equation-free approach to multiscale computation. The Journal of Chemical Physics. 124: 084106. PMID 16512707 DOI: 10.1063/1.2149854  0.586
2006 Erban R, Hwang HJ. Global existence results for complex hyperbolic models of bacterial chemotaxis Discrete and Continuous Dynamical Systems - Series B. 6: 1239-1260. DOI: 10.3934/Dcdsb.2006.6.1239  0.357
2006 Erban R, Kevrekidis IG, Othmer HG. An equation-free computational approach for extracting population-level behavior from individual-based models of biological dispersal Physica D: Nonlinear Phenomena. 215: 1-24. DOI: 10.1016/J.Physd.2006.01.008  0.712
2005 Erban R, Othmer HG. From individual to collective behavior in bacterial chemotaxis Siam Journal On Applied Mathematics. 65: 361-391. DOI: 10.1137/S0036139903433232  0.61
2005 Erban R, Othmer HG. From signal transduction to spatial pattern formation in E. coli: A paradigm for multiscale modeling in biology Multiscale Modeling and Simulation. 3: 362-394. DOI: 10.1137/040603565  0.564
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