D. Holcman

Analyzing photoactivation with diffusion models to study transport in the Endoplasmic Reticulum network

The paper uses diffusion models to analyze photoactivation data and infer biophysical properties of molecular transport in the Endoplasmic Reticulum network.

Simultaneous photoactivation and high-speed structural tracking reveal diffusion-dominated motion in the endoplasmic reticulum

This study uses photoactivation and high-speed imaging with machine learning to show that proteins in the ER exhibit Brownian diffusion, with structural asymmetry influencing their movement.

Experiments in micro-patterned model membranes support the narrow escape theory

The paper experimentally validates the narrow escape theory using micro-patterned lipid bilayers and single-molecule fluorescence microscopy, confirming predictions about mean first passage times in confined domains.

High-throughput super-resolution single particle trajectory analysis reconstructs organelle dynamics and membrane re-organization

This paper introduces a computational method to analyze high-throughput super-resolution single-particle trajectories, enabling reconstruction of organelle dynamics and membrane reorganization.

Post-replicative pairing of sister ter regions in Escherichia coli involves multiple activities of MatP

The paper investigates how MatP protein facilitates pairing of sister ter regions in E. coli by combining mobility analyses and biochemical methods, finding MatP tetramerization and ZapB interaction are essential.

Live-cell 3D single-molecule tracking reveals how NuRD modulates enhancer dynamics

This study uses live-cell 3D single-molecule tracking to show that the NuRD complex decompacts chromatin and alters enhancer dynamics by increasing their movement and reducing time in a fast-diffusing state.

The structure and global distribution of the endoplasmic reticulum network is actively regulated by lysosomes

This study shows lysosomes actively regulate ER remodeling by repositioning, affecting ER tubule distribution and morphology in response to metabolic changes.

Chemotaxis and topotaxis add vectorially for amoeboid cell migration

The paper investigates how topotaxis and chemotaxis combine in amoeboid cell migration, finding that their effects add linearly.

Telomeric chromosome ends are highly mobile and behave like free double-strand DNA breaks

The paper shows that telomeres in yeast are highly mobile despite being at the nuclear periphery, behaving like free double-strand DNA breaks.

Reconstructing wells from high density regions extracted from super-resolution single particle trajectories

The paper develops statistical methods to reconstruct potential wells from super-resolution single particle trajectories, applying them to analyze voltage-gated calcium channels and phospholipids on neuronal cells.

The first one hundred nanometers inside the pre-synaptic terminal where calcium diffusion triggers vesicular release

The paper models calcium diffusion in the pre-synaptic terminal to study its role in vesicular release and synaptic plasticity.

Fast calcium transients in neuronal spines driven by extreme statistics

The paper explains fast calcium transients in neuronal spines using biophysical modeling and live-cell imaging, showing they are driven by extreme statistics of calcium ion trajectories.

Statistical methods for large ensemble of super-resolution stochastic single particle trajectories

The paper develops statistical methods to analyze super-resolution single particle trajectories and extract biophysical features from cellular data.

Redundancy principle for optimal random search in biology

The paper redefines activation time scales in cellular biology by shifting from mean first passage time to the first arrival time among many particles, highlighting the role of population redundancy.

Two Loci Single Particle Trajectories Analysis: Constructing A First Passage Time Statistics Of Local Chromatin Exploration

The paper analyzes first passage time statistics of local chromatin exploration using single particle trajectories to study chromatin dynamics and changes after DNA damage.

Polymer physics of nuclear organization and function

This paper reviews polymer physics models linking nuclear organization to function, interpreting experimental data through physical processes like diffusion and chromatin dynamics.