378 citations · 1.1k across the 16 of their papers we have counts for
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Predicting Transcription Factor Specificity with All-Atom Models
Sahand Jamal Rahi, Peter Virnau, Leonid A. Mirny +1
The binding of a transcription factor (TF) to a DNA operator site can initiate or repress the expression of a gene. Computational prediction of sites recognized by a TF has traditi…
Untangling influences of hydrophobicity on protein sequences and structures
Mehdi Yahyanejad, Christopher B. Burge, Mehran Kardar
We fit the Fourier transforms of solvent accessibility and hydrophobicity profiles of a representative set of proteins to a joint multi-variable Gaussian. This allows us to separat…
The long reach of DNA sequence heterogeneity in diffusive processes
Michael Slutsky, Mehran Kardar, Leonid A. Mirny
Many biological processes involve one dimensional diffusion over a correlated inhomogeneous energy landscape with a correlation length . Typical examples are specific protein…