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Publications by Parisa Ebrahimi

Simulating the Melting of the Salmonella 4-U RNA Thermometer Using Replica Exchange Molecular Dynamics to Assess Force-Field Accuracy

Biophysical Journal

English

Related publications

Exchange Frequency in Replica Exchange Molecular Dynamics

Journal of Chemical Physics

Theoretical Chemistry

English

Analysis of the Bacterial Luciferase Mobile Loop by Replica-Exchange Molecular Dynamics

Biophysical Journal

English

Perovskite Quantum Dots Modeled Using Ab Initio and Replica Exchange Molecular Dynamics

Journal of Physical Chemistry C

Theoretical Chemistry

Magnetic Materials

English

Error and Efficiency of Replica Exchange Molecular Dynamics Simulations

Journal of Chemical Physics

Theoretical Chemistry

English

Sampling of Protein Folding Transitions: Multicanonical Versus Replica Exchange Molecular Dynamics

Journal of Chemical Theory and Computation

Theoretical Chemistry

Computer Science Applications

English

Simulating Replica Exchange: Markov State Models, Proposal Schemes, and the Infinite Swapping Limit

Journal of Physical Chemistry B

Theoretical Chemistry

Materials Chemistry

English

Refining Homology Models by Combining Replica-Exchange Molecular Dynamics and Statistical Potentials

Proteins: Structure, Function and Genetics

Structural Biology

Molecular Biology

English

Cryo-Cooling Effect on DHFR Crystal Studied by Replica-Exchange Molecular Dynamics Simulations

Biophysical Journal

English

Comment on “Preserving the Boltzmann Ensemble in Replica-Exchange Molecular Dynamics” [J. Chem. Phys. 129, 164112 (2008)]

Journal of Chemical Physics

Theoretical Chemistry

English