You're on the GitHub page for the Theoretical Physics of Life Processes group at Leiden University, led by Helmut Schiessel. Below you'll find information about the projects in our GitHub repositories. More information about the group itself and its research can be found on the group website.
The Schiessel Lab's GitHub repositories can be found at github.com/SchiesselLab. Here follow descriptions of our various computational projects.
Implementation of the Mutation Monte Carlo method of Eslami-Mossallam et al. (2016) [open access] for the nucleosome. Variations of this implementation have been used in various publications:
Combining the basic idea for a Markov chain model for sequence-dependent nucleosome positioning presented by Segal et al. (2006) [doi] with nucleosomal sequence preference statistics derived from the Mutation Monte Carlo method of Eslami-Mossallam et al. (2016) [open access] leads to a computationally efficient method for predicting nucleosome affinity from based on a theoretical model of the nucleosome.
This methodology is explained and applied in the following publications: