Intermittent search strategies
This review examines intermittent target search strategies, which combine phases of slow
motion, allowing the searcher to detect the target, and phases of fast motion during which …
motion, allowing the searcher to detect the target, and phases of fast motion during which …
Optical tweezers analysis of DNA–protein complexes
Cellular DNA is continuously engaged in a molecular dance with many accessory proteins.
These proteins are responsible for orchestrating the storage, maintenance, and transfer of …
These proteins are responsible for orchestrating the storage, maintenance, and transfer of …
Probing the target search of DNA-binding proteins in mammalian cells using TetR as model searcher
D Normanno, L Boudarène, C Dugast-Darzacq… - Nature …, 2015 - nature.com
Many cellular functions rely on DNA-binding proteins finding and associating to specific sites
in the genome. Yet the mechanisms underlying the target search remain poorly understood …
in the genome. Yet the mechanisms underlying the target search remain poorly understood …
Guided nuclear exploration increases CTCF target search efficiency
The enormous size of mammalian genomes means that for a DNA-binding protein the
number of nonspecific, off-target sites vastly exceeds the number of specific, cognate sites …
number of nonspecific, off-target sites vastly exceeds the number of specific, cognate sites …
An end to 40 years of mistakes in DNA–protein association kinetics?
SE Halford - Biochemical Society Transactions, 2009 - portlandpress.com
Proteins that bind to specific sequences in long DNA molecules have to locate their target
sites amid myriad alternative sequences, yet they do so at remarkably rapid rates …
sites amid myriad alternative sequences, yet they do so at remarkably rapid rates …
Reaction‐diffusion systems in intracellular molecular transport and control
Chemical reactions make cells work only if the participating chemicals are delivered to
desired locations in a timely and precise fashion. Most research to date has focused on …
desired locations in a timely and precise fashion. Most research to date has focused on …
Biophysical characterization of DNA binding from single molecule force measurements
Single molecule force spectroscopy is a powerful method that uses the mechanical
properties of DNA to explore DNA interactions. Here we describe how DNA stretching …
properties of DNA to explore DNA interactions. Here we describe how DNA stretching …
Facilitated diffusion with DNA coiling
When DNA-binding proteins search for their specific binding site on a DNA molecule they
alternate between linear 1-dimensional diffusion along the DNA molecule, mediated by …
alternate between linear 1-dimensional diffusion along the DNA molecule, mediated by …
Dancing on DNA: kinetic aspects of search processes on DNA
Recognition and binding of specific sites on DNA by proteins is central for many cellular
functions such as transcription, replication, and recombination. In the search for its target …
functions such as transcription, replication, and recombination. In the search for its target …
From single-particle stochastic kinetics to macroscopic reaction rates: fastest first-passage time of N random walkers
We consider the first-passage problem for N identical independent particles that are initially
released uniformly in a finite domain Ω and then diffuse toward a reactive area Γ, which can …
released uniformly in a finite domain Ω and then diffuse toward a reactive area Γ, which can …