554 citations · 2.4k across the 15 of their papers we have counts for
5 papers · 1 filter
Nucleosome-mediated cooperativity between transcription factors
Leonid A. Mirny
Cooperative binding of transcription factors (TFs) to cis-regulatory regions (CRRs) is essential for precision of gene expression in development and other processes. The classical…
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…
Spatial effects on the speed and reliability of protein-DNA search
Zeba Wunderlich, Leonid A. Mirny
Strong experimental and theoretical evidence shows that transcription factors and other specific DNA-binding proteins find their sites using a two-mode search: alternating between…
Kinetics of protein-DNA interaction: facilitated target location in sequence-dependent potential
Michael Slutsky, Leonid A. Mirny
Recognition and binding of specific sites on DNA by proteins is central for many cellular functions such as transcription, replication, and recombination. In the process of recogni…
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…