Basin hopping simulations for all-atom protein folding.

By A. Verma, Alexander Schug, K. H. Lee, Wolfgang Wenzel. 2006

72 citations recorded by the source corpus.

How researchers see this paper

The researchers whose trusted networks rank it highest, strongest advocate first. Every researcher gets a different order.

Coevolutionary Landscape Inference and the Context-Dependence of Mutations in Beta-Lactamase TEM-1 (2015, methodology): “Molecular simulations were performed using SIMONA [77], a Monte-Carlo based simulation software for efficient molecular simulations which have proved useful to obtain reproducible folding in a series of test cases [78, 79].”
Optimal execution with non-linear transient market impact (2014, unknown): “landscape under concave instantaneous market impact is rugged rather than sloppy. This situation is reminiscent of the search for the global minimum of the free-energy force ﬁeld describing a protein [49]. The similarity with our problem is given by the structure of the freeenergy, described by the ”
Holographic Acoustic Elements for Manipulation of Levitated Objects (2015, unknown): “BFGS optimizers 31,32 with Basin Hop 33 have been successfully used before to solve the structure of condensed matter 34 , proteins 35,36 , or atoms configurations 33,37 .”
The protein folding problem. (2008, methodology): “Physical potential models have also been sampled using non-Boltzmann stochastic and deterministic optimization strategies (121, 174, 207, 220).”