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Integrative Modeling of 3D Genome Organization by Bayesian Molecular Dynamics Simulations with Hi-C Metainference

Computational Methods for 3D Genome Analysis Protocol : 309

Can the AMOEBA forcefield be used for high pressure simulations? The extreme case of methane and water

The Journal of Chemical Physics 161 : 054506

Multiscale Bayesian simulations reveal functional chromatin condensation of gene loci

PNAS Nexus 3 : pgae226

Combining contact frequency and histone modification data to tune a coarse-grained chromatin model

Biophysical Journal 123 : 366a

Lateral interactions govern self-assembly of the bacterial biofilm matrix protein BslA

Proceedings of the National Academy of Sciences 120 : e2312022120

Bi-directional nucleosome sliding by the Chd1 chromatin remodeler integrates intrinsic sequence-dependent and ATP-dependent nucleosome positioning

Nucleic Acids Research 51 : 10326

Molecular dynamics simulations for the study of chromatin biology

Current Opinion in Structural Biology 77 : 102485

The lane-switch mechanism for nucleosome repositioning by DNA translocase

Nucleic acids research 49 : 9066

The kinetic landscape of nucleosome assembly: a coarse-grained molecular dynamics study

PLoS computational biology 17 : e1009253

Translational nucleosome positioning: A computational study

Physical Review E 101 : 022405

Nucleosomes as allosteric scaffolds for genetic regulation

Current Opinion in Structural Biology 62 : 93

Langmuir-Blodgett technique for anisotropic colloids: Young investigator perspective

Journal of Colloid and Interface Science 540 : 420

Chromatin remodelers couple inchworm motion with twist-defect formation to slide nucleosomal DNA

PLoS computational biology 14 : e1006512

DNA sliding in nucleosomes via twist defect propagation revealed by molecular simulations

Nucleic acids research 46 : 2788

Sequence-dependent nucleosome sliding in rotation-coupled and uncoupled modes revealed by molecular simulations

PLoS computational biology 13 : e1005880

Adsorption of the natural protein surfactant Rsn-2 onto liquid interfaces

Physical Chemistry Chemical Physics 19 : 8584

The Conformation of Interfacially Adsorbed Ranaspumin-2 Is an Arrested State on the Unfolding Pathway

Biophysical Journal 111 : 732

The Bacterial Hydrophobin BslA is a Switchable Ellipsoidal Janus Nanocolloid

Langmuir 31 : 11558

Quantifying disorder through conditional entropy: an application to fluid mixing

PLoS One 8 : e65617