Dario D’Asaro

This paper develops a biophysical model of loop extrusion that links motor dynamics to chromatin accessibility and compaction, revealing how nucleosome spacing affects extrusion speed.

The paper models the spatial organization of replicated chromosomes in yeast, finding that cohesion between sister chromatids is asymmetric and loosely aligned.

This paper introduces a Bayesian model for DNA replication that infers origin timing and activation delays using RFD data, revealing 150 origins with significant delays in yeast.

The paper models DNA replication in yeast to show replication-dependent spatial patterns and chromatin dynamics in the nucleus.

The paper identifies cohesin-dependent 3D chromatin structures called fountains around active enhancers in C. elegans, showing their role in repressing enhancer activity and linking genome architecture to behavior.

The paper develops a computational framework to model DNA replication dynamics and their impact on chromosome organization, showing replication-dependent loop extrusion and sister chromatid interactions in yeast.