Assessing the performance of stochastic optimization methods in structural modelling
The efficiency of Monte Carlo (MC) based stochastic optimization methods (e.g. Kirkpatrick, et al. Science, 220, 671–680 (1983)) are compared to find low energy conformational states of a given system. We are particularly interested in MC protocols where the temperature varies as a series of impulses followed by relaxation and only the temperature of a given part (e.g. site of interest) of the system is changed.
Prerequisites: Recommended for students who has done the Probability and Computing and Geometric Modelling courses and have interest in randomized search methods and their applications in structural biology.