Efficient exploration of discrete energy landscapes

Details Efficient exploration of discrete energy landscapes Efficient exploration of discrete energy landscapes

2009-10-14

arxiv.org/abs/0910.2559v3

Physical Review E 83, 011113 (2011)

Biology

Quantitative Biology

Biomolecules

7 pages, 5 figures

Scientific paper

10.1103/PhysRevE.83.011113

Many physical and chemical processes, such as folding of biopolymers, are best described as dynamics on large combinatorial energy landscapes. A concise approximate description of dynamics is obtained by partitioning the micro-states of the landscape into macro-states. Since most landscapes of interest are not tractable analytically, the probabilities of transitions between macro-states need to be extracted numerically from the microscopic ones, typically by full enumeration of the state space. Here we propose to approximate transition probabilities by a Markov chain Monte-Carlo method. For landscapes of the number partitioning problem and an RNA switch molecule we show that the method allows for accurate probability estimates with significantly reduced computational cost.

Affiliated with

Also associated with

No associations

Rating

Efficient exploration of discrete energy landscapes does not yet have a rating. At this time, there are no reviews or comments for this scientific paper.

If you have personal experience with Efficient exploration of discrete energy landscapes, we encourage you to share that experience with our LandOfFree.com community. Your opinion is very important and Efficient exploration of discrete energy landscapes will most certainly appreciate the feedback.

Rate now

Comments { 0 }

Profile ID: LFWR-SCP-O-18866