Posts Tagged ‘genodock’

Machine-learning-assisted modeling: Physics Today: Vol 74, No 7

November 23, 2021

QT : {{”
One of the most successful applications of machine learning to scientific modeling is in MD. Researchers study the properties of materials and molecules by using classical Newtonian dynamics to track the nuclei in a system. One critical issue in MD is how to model the PES that describes the interaction between the nuclei. Traditionally, modelers have dealt with the problem in several ways. One approach, ab initio MD, was developed in 1985 by Roberto Car and Michele
Parrinello7 and computes the interatomic forces on the fly using models based on first principles, such as density functional theory.8 Although the approach accurately describes the system under
consideration, it‘s computationally expensive: The maximum system size that one can handle is limited to thousands of atoms. Another approach uses empirical formulas to model a PES. The method is efficient, but guessing the right formula that can model the PES accurately enough is a difficult task, particularly for complicated systems, such as multicomponent alloys. In 2007 Jörg Behler and Parrinello introduced the idea of using neural networks to model the PES.9 In that new paradigm, a quantum mechanics model generates data that are used to train a neural-network-based PES model.

7. R. Car, M. Parrinello, Phys. Rev. Lett. 55, 2471 (1985).

9. J. Behler, M. Parrinello, Phys. Rev. Lett. 98, 146401 (2007).

mentions Parrinelllo classic paper :
#8 has QM & NN (NN models for PES)

Artificial intelligence alone won’t solve the complexity of Earth sciences

September 2, 2019

Artificial intelligence alone won’t solve the complexity of Earth sciences

annotation score

May 18, 2019

exome score and annotation

whole genome score and annotation