Chemical reactions simulation empirically

Abstract A mixed molecular orbital and valence bond (MOVE) method has been developed and applied to chemical reactions. In the MOVE method, a diabatic or valence bond (VE) state is defined with a block-localized wave function (ELW). Consequently, the adiabatic state can be described by the superposition of a set of critical adiabatic states. Test cases indicate the method is a viable alternative to the empirical valence bond (EVE) approach for defining solvent reaction coordinate in the combined qnantum mechanical and molecnlar mechanical (QM/MM) simulations employing exphcit molecular orbital methods. 

In the early 1990s, Brenner and coworkers [163] developed interaction potentials for model explosives that include realistic chemical reaction steps (i.e., endothermic bond rupture and exothermic product formation) and many-body effects. This potential, called the Reactive Empirical Bond Order (REBO) potential, has been used in molecular dynamics simulations by numerous groups to explore atomic-level details of self-sustained reaction waves propagating through a crystal [163-171], The potential is based on ideas first proposed by Abell [172] and implemented for covalent solids by Tersoff [173]. It introduces many-body effects through modification of the pair-additive attractive term by an empirical bond-order function whose value is dependent on the local atomic environment. The form that has been used in the detonation simulations assumes that the total energy of a system of N atoms is ... 

The observed empirical models should now be employed to simulate and predict kinetic behaviors obtained with administration protocols other than that used for observation. Moreover, we must develop pharmacokinetics in a multicompartment system by including the presence of a fractal organ. We have argued that the liver, where most of the enzymatic processes of drug elimination take place, has a fractal structure. Hence, we expect transport processes as well as chemical reactions taking place in the liver to carry a signature of its fractality. 

Computationally efficient ab initio quantum mechanical calculations within the framework of DFT play a significant role in the study of plasma-surface interactions. First, they are used to parametrize classical force fields for MD simulations. Second, they provide the quantitative accuracy needed in the development of a chemical reaction database for KMC simulations over long time scales upon identification of a surface chemical reaction through MD simulation, DFT can be used to address in quantitative detail the reaction energetics and kinetics. Third, DFT-based chemical reaction analysis and comparison with the corresponding predictions of the empirical interatomic potential used in the MD simulations provides further... 

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