Biomod/2011/Caltech/DeoxyriboNucleicAwesome/Random Walk Formula
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==General Modeling Idea==  ==General Modeling Idea==  
  The random walk on DNA origami can be modeled as one dimensional random walk with a reflecting and an absorbing barrier (Figure 1). Tracks in the same column are grouped into rectangles, and each step is defined as walking from one rectangle to the adjacent one  +  The random walk on DNA origami can be modeled as one dimensional random walk with a reflecting and an absorbing barrier (Figure 1). Tracks in the same column are grouped into rectangles, and each step is defined as walking from one rectangle to the adjacent one. 
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[[Image:RW.bmpthumbcenter800pxFigure 2. A line segment with N+1 distinct sites. The walker starts the random walk at i and is reflected at N with a probability of β. The random walk ends once it reaches site 0. ]]  [[Image:RW.bmpthumbcenter800pxFigure 2. A line segment with N+1 distinct sites. The walker starts the random walk at i and is reflected at N with a probability of β. The random walk ends once it reaches site 0. ]]  
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Revision as of 07:49, 2 October 2011
Wednesday, November 26, 2014

Random Walk Formula
General Modeling IdeaThe random walk on DNA origami can be modeled as one dimensional random walk with a reflecting and an absorbing barrier (Figure 1). Tracks in the same column are grouped into rectangles, and each step is defined as walking from one rectangle to the adjacent one.
Consider a random walk on a line segment with N+1 sites denoted by integers (0,1,2, … , N) (Figure 2). The walker starts random walk at site i, 0 < i ≤ N. Let p be the probability for the walker to move one segment to the left, q be the probability for the walker to move one segment to the right. The probability for the walker to stay at a particular site for the next unit time is thus r = 1 – p – q. When the walker reaches site N, the partially reflecting barrier, it has a probability of β to be reflected back to site N – 1, and a probability of α = 1 – β to stay at site N in the next unit time. When reaching site 0, the absorbing barrier, it stays there for 100% probability and the random walk ends.
