Zobrazeno 1 - 10
of 110
pro vyhledávání: '"EARL, DAVID J."'
We employ three numerical methods to explore the motion of low Reynolds number swimmers, modeling the hydrodynamic interactions by means of the Oseen tensor approximation, lattice Boltzmann simulations and multiparticle collision dynamics. By applyin
Externí odkaz:
http://arxiv.org/abs/cond-mat/0701511
The immune system normally protects the human host against death by infection. However, when an immune response is mistakenly directed at self antigens, autoimmune disease can occur. We describe a model of protein evolution to simulate the dynamics o
Externí odkaz:
http://arxiv.org/abs/q-bio/0508020
Autor:
Earl, David J., Deem, Michael W.
We review the history of the parallel tempering simulation method. From its origins in data analysis, the parallel tempering method has become a standard workhorse of physiochemical simulations. We discuss the theory behind the method and its various
Externí odkaz:
http://arxiv.org/abs/physics/0508111
We introduce a new measure of antigenic distance between influenza A vaccine and circulating strains. The measure correlates well with efficacies of the H3N2 influenza A component of the annual vaccine between 1971 and 2004, as do results of a theory
Externí odkaz:
http://arxiv.org/abs/q-bio/0503030
Autor:
Earl, David J., Deem, Michael W.
Adaptive Monte Carlo methods can be viewed as implementations of Markov chains with infinite memory. We derive a general condition for the convergence of a Monte Carlo method whose history dependence is contained within the simulated density distribu
Externí odkaz:
http://arxiv.org/abs/physics/0411150
Autor:
Earl, David J., Deem, Michael W.
Concomitant with the evolution of biological diversity must have been the evolution of mechanisms that facilitate evolution, due to the essentially infinite complexity of protein sequence space. We describe how evolvability can be an object of Darwin
Externí odkaz:
http://arxiv.org/abs/q-bio/0407012
Autor:
Earl, David J., Deem, Michael W.
The optimal allocation of replicas to a homogeneous or heterogenous set of processors is derived for parallel tempering simulations on multi-processor machines. In the general case, it is possible without substantially increasing wall clock time to a
Externí odkaz:
http://arxiv.org/abs/physics/0402062
Autor:
Yan, Fangyong, Earl, David J.
Publikováno v:
Journal of Chemical Physics; 3/28/2012, Vol. 136 Issue 12, p124506, 8p, 3 Diagrams, 5 Graphs
Autor:
Earl, David J., Wilson, Mark R.
Publikováno v:
Journal of Chemical Physics; 5/22/2004, Vol. 120 Issue 20, p9679-9683, 5p, 1 Diagram, 1 Chart, 1 Graph
Autor:
Earl, David J., Wilson, Mark R.
Publikováno v:
Journal of Chemical Physics; 11/15/2003, Vol. 119 Issue 19, p10280-10288, 9p, 5 Diagrams, 3 Charts, 5 Graphs