Literature DB >> 34310133

Physics-Inspired Structural Representations for Molecules and Materials.

Felix Musil1,2, Andrea Grisafi1, Albert P Bartók3, Christoph Ortner4, Gábor Csányi5, Michele Ceriotti1,2.   

Abstract

The first step in the construction of a regression model or a data-driven analysis, aiming to predict or elucidate the relationship between the atomic-scale structure of matter and its properties, involves transforming the Cartesian coordinates of the atoms into a suitable representation. The development of atomic-scale representations has played, and continues to play, a central role in the success of machine-learning methods for chemistry and materials science. This review summarizes the current understanding of the nature and characteristics of the most commonly used structural and chemical descriptions of atomistic structures, highlighting the deep underlying connections between different frameworks and the ideas that lead to computationally efficient and universally applicable models. It emphasizes the link between properties, structures, their physical chemistry, and their mathematical description, provides examples of recent applications to a diverse set of chemical and materials science problems, and outlines the open questions and the most promising research directions in the field.

Entities:  

Year:  2021        PMID: 34310133     DOI: 10.1021/acs.chemrev.1c00021

Source DB:  PubMed          Journal:  Chem Rev        ISSN: 0009-2665            Impact factor:   60.622


  12 in total

1.  Gaussian Process Regression for Materials and Molecules.

Authors:  Volker L Deringer; Albert P Bartók; Noam Bernstein; David M Wilkins; Michele Ceriotti; Gábor Csányi
Journal:  Chem Rev       Date:  2021-08-16       Impact factor: 60.622

2.  Scoring Functions for Protein-Ligand Binding Affinity Prediction using Structure-Based Deep Learning: A Review.

Authors:  Rocco Meli; Garrett M Morris; Philip C Biggin
Journal:  Front Bioinform       Date:  2022-06-17

3.  BIGDML-Towards accurate quantum machine learning force fields for materials.

Authors:  Huziel E Sauceda; Luis E Gálvez-González; Stefan Chmiela; Lauro Oliver Paz-Borbón; Klaus-Robert Müller; Alexandre Tkatchenko
Journal:  Nat Commun       Date:  2022-06-29       Impact factor: 17.694

4.  Symmetric Molecular Dynamics.

Authors:  Sam Cox; Andrew D White
Journal:  J Chem Theory Comput       Date:  2022-06-14       Impact factor: 6.578

5.  SPAHM: the spectrum of approximated Hamiltonian matrices representations.

Authors:  Alberto Fabrizio; Ksenia R Briling; Clemence Corminboeuf
Journal:  Digit Discov       Date:  2022-04-04

6.  Identifying molecular structural features by pattern recognition methods.

Authors:  Qing Lu
Journal:  RSC Adv       Date:  2022-06-14       Impact factor: 4.036

7.  Machine Learning Force Fields.

Authors:  Oliver T Unke; Stefan Chmiela; Huziel E Sauceda; Michael Gastegger; Igor Poltavsky; Kristof T Schütt; Alexandre Tkatchenko; Klaus-Robert Müller
Journal:  Chem Rev       Date:  2021-03-11       Impact factor: 60.622

8.  Learning protein-ligand binding affinity with atomic environment vectors.

Authors:  Rocco Meli; Andrew Anighoro; Mike J Bodkin; Garrett M Morris; Philip C Biggin
Journal:  J Cheminform       Date:  2021-08-14       Impact factor: 5.514

9.  The Energy Landscape Perspective: Encoding Structure and Function for Biomolecules.

Authors:  Konstantin Röder; David J Wales
Journal:  Front Mol Biosci       Date:  2022-01-27

10.  Combining Machine Learning and Computational Chemistry for Predictive Insights Into Chemical Systems.

Authors:  John A Keith; Valentin Vassilev-Galindo; Bingqing Cheng; Stefan Chmiela; Michael Gastegger; Klaus-Robert Müller; Alexandre Tkatchenko
Journal:  Chem Rev       Date:  2021-07-07       Impact factor: 60.622

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