The first passage problem for diffusion through a cylindrical pore with sticky walls

We calculate the first passage time distribution for diffusion through a cylindrical pore with sticky walls. A particle diffusively explores the interior of the pore through a series of binding and unbinding events with the cylinder wall. Through a diagrammatic expansion we obtain first passage time statistics for the particle's exit from the pore. Connections between the model and nucleocytoplasmic transport in cells are discussed.Comment: v2: 13 pages, 6 figures, substantial revision

Self-assembly of DNA-coded nanoclusters

We present a theoretical discussion of a self-assembly scheme which makes it possible to use DNA to uniquely encode the composition and structure of micro- and nanoparticle clusters. These anisotropic DNA-decorated clusters can be further used as building blocks for hierarchical self-assembly of larger structures. We address several important aspects of possible experimental implementation of the proposed scheme: the competition between different types of clusters in a solution, possible jamming in an unwanted configuration, and the degeneracy due to symmetry with respect to particle permutations.Comment: v2, 4 pages, 7 figures, added journal re

Colloids with key-lock interactions: non-exponential relaxation, aging and anomalous diffusion

The dynamics of particles interacting by key-lock binding of attached biomolecules are studied theoretically. Experimental realizations of such systems include colloids grafted with complementary single-stranded DNA (ssDNA), and particles grafted with antibodies to cell-membrane proteins. Depending on the coverage of the functional groups, we predict two distinct regimes. In the low coverage localized regime, there is an exponential distribution of departure times. As the coverage is increased the system enters a diffusive regime resulting from the interplay of particle desorption and diffusion. This interplay leads to much longer bound state lifetimes, a phenomenon qualitatively similar to aging in glassy systems. The diffusion behavior is analogous to dispersive transport in disordered semiconductors: depending on the interaction parameters it may range from a finite renormalization of the diffusion coefficient to anomalous, subdiffusive behavior. We make connections to recent experiments and discuss the implications for future studies.Comment: v2: substantially revised version, new treatment of localized regime, 19 pages, 10 figure

Revealing the visually unknown in ancient manuscripts with a similarity measure for IR-imaged inks

One of the tasks facing historians and conservationists is the authentication or dating of medieval manuscripts. To this end it is important to them to verify whether writings on the same or different manuscripts are concurrent. In this work we explore this task by capturing images of manuscript pages in infrared (IR) and modelling and then comparing the ink appearance of segmented text. The modelling of the text appearance relies on the unsupervised multimodal clustering of ink descriptors and the derived probability density functions. The similarity measure is built around the distribution of cluster labels and their proportions. We demonstrate our method by using both model inks of known composition and authentic Byzantine manuscripts