We present an approach that extends the theory of targeted free energy perturbation (TFEP) to calculate free energy differences and free energy surfaces at an accurate quantum mechanical level of theory from a cheaper reference potential. The convergence is accelerated by a mapping function that increases the overlap between the target and the reference distributions. Building on recent work, we show that this map can be learned with a normalizing flow neural network, without requiring simulations with the expensive target potential but only a small number of single-point calculations, and, crucially, avoiding the systematic error that was found previously. We validate the method by numerically evaluating the free energy difference in a sys...
The use of the most accurate (i.e., QM or QM/MM) levels of theory for free energy simulations (FES) ...
We present a general method called atom-wise free energy perturbation (AFEP), which extends a conven...
As access to computational resources continues to increase, free-energy calculations have emerged as...
We present an approach that extends the theory of targeted free energy perturbation (TFEP) to calcul...
We present a new method to compute free energies at a quantum mechanical (QM) level of theory from m...
To achieve chemical accuracy in free energy calculations, it is necessary to accurately describe the...
We have investigated the feasibility of predicting free energy differences between a manifold of mol...
2013-04-29Reliable computational modelling of chemical processes in condensed phases such as computa...
The work presented within this thesis uses quantum mechanical (QM) calculations to improve free ener...
The optimization of minimum free energy pathways (MFEP) is one of the most widely used strategies to...
We describe a method to locate stationary points in the free-energy hypersurface of complex molecula...
The calculations of potential of mean force along complex chemical reactions or rare events pathways...
Free-energy calculations play an important role in the application of computational chemistry to a r...
4 pages, 1 figureInternational audienceWe develop an efficient sampling and free energy calculation ...
Abstract: A challenge in free energy calculation for complex molecular systems by computer simulatio...
The use of the most accurate (i.e., QM or QM/MM) levels of theory for free energy simulations (FES) ...
We present a general method called atom-wise free energy perturbation (AFEP), which extends a conven...
As access to computational resources continues to increase, free-energy calculations have emerged as...
We present an approach that extends the theory of targeted free energy perturbation (TFEP) to calcul...
We present a new method to compute free energies at a quantum mechanical (QM) level of theory from m...
To achieve chemical accuracy in free energy calculations, it is necessary to accurately describe the...
We have investigated the feasibility of predicting free energy differences between a manifold of mol...
2013-04-29Reliable computational modelling of chemical processes in condensed phases such as computa...
The work presented within this thesis uses quantum mechanical (QM) calculations to improve free ener...
The optimization of minimum free energy pathways (MFEP) is one of the most widely used strategies to...
We describe a method to locate stationary points in the free-energy hypersurface of complex molecula...
The calculations of potential of mean force along complex chemical reactions or rare events pathways...
Free-energy calculations play an important role in the application of computational chemistry to a r...
4 pages, 1 figureInternational audienceWe develop an efficient sampling and free energy calculation ...
Abstract: A challenge in free energy calculation for complex molecular systems by computer simulatio...
The use of the most accurate (i.e., QM or QM/MM) levels of theory for free energy simulations (FES) ...
We present a general method called atom-wise free energy perturbation (AFEP), which extends a conven...
As access to computational resources continues to increase, free-energy calculations have emerged as...