72 citations · 252 across the 5 of their papers we have counts for
6 papers
Conformational Fluctuations and Phases in Fused in Sarcoma (FUS) Low-Complexity Domain
D. Thirumalai, Abhinaw Kumar, Debayan Chakraborty +2
The well known phenomenon of phase separation in synthetic polymers and proteins has become a major topic in biophysics because it has been invoked as a mechanism of compartment fo…
Immunization Strategies Based on the Overlapping Nodes in Networks with Community Structure
Debayan Chakraborty, Anurag Singh, Hocine Cherifi
Understanding how the network topology affects the spread of an epidemic is a main concern in order to develop efficient immunization strategies. While there is a great deal of wor…
On the emergence of orientational order in folded proteins with implications for allostery
Debayan Chakraborty, Mauro Lorenzo Mugnai, D. Thirumalai
The beautiful structures of single and multi-domain proteins are clearly ordered in some fashion but cannot be readily classified using group theory methods that are successfully u…
Charge fluctuation effects on the shape of flexible polyampholytes with applications to Intrinsically disordered proteins
Himadri S. Samanta, Debayan Chakraborty, D. Thirumalai
Random polyampholytes (PAs) contain positively and negatively charged monomers that are distributed randomly along the polymer chain. The interaction between charges is assumed to…
Sequence-dependent Three Interaction Site (TIS) Model for Single and Double-stranded DNA
Debayan Chakraborty, Naoto Hori, Dave Thirumalai
We develop a robust coarse-grained model for single and double stranded DNA by representing each nucleotide by three interaction sites (TIS) located at the centers of mass of sugar…
Coarse-grained simulations of DNA overstretching
Flavio Romano, Debayan Chakraborty, Jonathan P. K. Doye +2
We use a recently developed coarse-grained model to simulate the overstretching of duplex DNA. Overstretching at 23C occurs at 74 pN in the model, about 6-7 pN higher than the expe…