87 citations · 132 across the 3 of their papers we have counts for
3 papers
q-bio.BM2011★ 87 cited
Crowding Promotes the Switch from Hairpin to Pseudoknot Conformation in Human Telomerase RNA
Natalia A. Denesyuk, D. Thirumalai
Formation of a pseudoknot in the conserved RNA core domain in the ribonucleoprotein human telomerase is required for function. In vitro experiments show that the pseudoknot (PK) is…
cond-mat.soft2009★ 7 cited
Equilibrium and nonequilibrium effects in the collapse of a model polypeptide
Natalia A. Denesyuk, John D. Weeks
We present results of molecular simulations of a model protein whose hydrophobic collapse proceeds as a cascade of downhill transitions between distinct intermediate states. Differ…
cond-mat.stat-mech2008★ 38 cited
A new approach for efficient simulation of Coulomb interactions in ionic fluids
Natalia A. Denesyuk, John D. Weeks
We propose a simplified version of local molecular field (LMF) theory to treat Coulomb interactions in simulations of ionic fluids. LMF theory relies on splitting the Coulomb poten…