56 citations · 105 across the 8 of their papers we have counts for
8 papers
Loop Extrusion Reversal by Condensin Motor is Mediated by Catch Bonds
Atreya Dey, Guang Shi, Ryota Takaki +1
Structural Maintenance Complexes (SMC) are energy consuming motors that are important in folding the genome by loop extrusion (LE) in all stages of the cell cycle. Single molecule…
Fluctuation-Response Theory of Non-Equilibrium Complex Fluids
Ryota Takaki, Frank Jülicher
A fundamental challenge in soft matter physics is to describe materials, such as the living cytoplasm and tissues, that are simultaneously active, chemically driven, and exhibit lo…
Active Loop Extrusion guides DNA-Protein Condensation
Ryota Takaki, Yahor Savich, Jan Brugués +1
The spatial organization of DNA involves DNA loop extrusion and the formation of protein-DNA condensates. While the significance of each process is increasingly recognized, their i…
Sequence Complexity and Monomer Rigidity Control the Morphologies and Aging Dynamics of Protein Aggregates
Ryota Takaki, Dave Thirumalai
Protein aggregates exhibit diverse morphology, exemplified by amyloid fibrils, gel-like structures, and liquid-like condensates. Differences in the morphologies in identical protei…
Theory of rheology and aging of protein condensates
Ryota Takaki, Louise Jawerth, Marko Popović +1
Biological condensates are assemblies of proteins and nucleic acids that form membraneless compartments in cells and play essential roles in cellular functions. In many cases they…
Information flow, Gating, and Energetics in dimeric molecular motors
Ryota Takaki, Mauro L. Mugnai, D. Thirumalai
Molecular motors belonging to the kinesin and myosin super family hydrolyze ATP by cycling through a sequence of chemical states. These cytoplasmic motors are dimers made up of two…
Theory and Simulations of condensin mediated loop extrusion in DNA
Ryota Takaki, Atreya Dey, Guang Shi +1
Condensation of hundreds of mega-base-pair-long human chromosomes in a small nuclear volume is a spectacular phenomenon. This process is driven by the formation of chromosome loops…
How kinesin waits for ATP affects the nucleotide and load dependence of the stepping kinetics
Ryota Takaki, Mauro L. Mugnai, Yonathan Goldtzvik +1
Dimeric molecular motors walk on polar tracks by binding and hydrolyzing one ATP per step. Despite tremendous progress, the waiting state for ATP binding in the well-studied kinesi…