We provide an analytical tool based on a variational Bayesian treatment of hidden Markov
models to combine the information from thousands of short single-molecule trajectories of …

The maintenance of intact genetic information, as well as the deployment of transcription for
specific sets of genes, critically rely on a family of proteins interacting with DNA and …

The extent to which ligand occupancy and dimerization contribute to erbB1 signaling is
controversial. To examine this, we used two-color quantum-dot tracking for visualization of …

Single molecule studies have expanded rapidly over the past decade and have the ability to
provide an unprecedented level of understanding of biological systems. A common …

In many cases, transcriptional regulation involves the binding of transcription factors at sites
on the DNA that are not immediately adjacent to the promoter of interest. This action at a …

This article examines the current status of Markov processes in single molecule
fluorescence. For molecular dynamics to be described by a Markov process, the Markov …

At many promoters, transcription is regulated by simultaneous binding of a protein to
multiple sites on DNA, but the structures and dynamics of such transcription factor-mediated …

We develop a Bayesian nonparametric framework to analyze single molecule FRET
(smFRET) data. This framework, a variation on infinite hidden Markov models, goes beyond …

We describe a tethered multifluorophore motion assay based on DNA origami for revealing
bimolecular reaction kinetics on the single-molecule level. Molecular binding partners may …

Protamine proteins dramatically condense DNA in sperm to almost crystalline packing
levels. Here, we measure the first step in the in vitro pathway, the folding of DNA into a …