M. K. Mitra

Protein search processes mediated by chromatin topology

The paper investigates how chromatin compaction affects protein search kinetics using models and experimental data, finding optimal compaction minimizes protein residence time.

Anomalous diffusion of E. coli under microfluidic confinement and chemical gradient

This study investigates how confinement and chemical gradients affect E. coli motility, finding super-diffusive behavior under these conditions.

Theoretical analysis of cargo transport by catch bonded motors in optical trapping assays

This paper analyzes cargo transport by catch bonded dynein motors using theory and simulations, finding that catch bonding increases persistent motion and can cause non-monotonic first passage times.

Predicting scale-dependent chromatin polymer properties from systematic coarse-graining

The paper systematically coarse-grains chromatin using Micro-C data to predict polymer properties, showing beads are soft and overlapping with distinct behavior at TAD boundaries.

Multivalent binding proteins can drive collapse and reswelling of chromatin in confinement

This study shows that multivalent binding proteins can cause chromatin to collapse and reswell in confined spaces, with reswelling dependent on protein concentration and confinement strength.

The accidental ally: Nucleosomal barriers can accelerate cohesin mediated loop formation in chromatin

The paper shows that nucleosomes can reduce loop formation times for cohesin by acting as barriers at high concentrations, contrary to their role at low densities.

A Lamin Associated Chromatin Model for Chromosome Organization

The paper introduces a polymer model of chromatin organization influenced by Lamin proteins, showing how they shape chromosome territories and chromatin domain structures.

Dynein catch bond as a mediator of codependent bidirectional cellular transport

The paper resolves the paradox of codependent bidirectional transport by showing dynein's catchbonding behavior enables regulatory mechanisms in motor function.