Literature DB >> 34398616

Gaussian Process Regression for Materials and Molecules.

Volker L Deringer1, Albert P Bartók2, Noam Bernstein3, David M Wilkins4, Michele Ceriotti5,6, Gábor Csányi7.   

Abstract

We provide an introduction to Gaussian process regression (GPR) machine-learning methods in computational materials science and chemistry. The focus of the present review is on the regression of atomistic properties: in particular, on the construction of interatomic potentials, or force fields, in the Gaussian Approximation Potential (GAP) framework; beyond this, we also discuss the fitting of arbitrary scalar, vectorial, and tensorial quantities. Methodological aspects of reference data generation, representation, and regression, as well as the question of how a data-driven model may be validated, are reviewed and critically discussed. A survey of applications to a variety of research questions in chemistry and materials science illustrates the rapid growth in the field. A vision is outlined for the development of the methodology in the years to come.

Entities:  

Year:  2021        PMID: 34398616      PMCID: PMC8391963          DOI: 10.1021/acs.chemrev.1c00022

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


  215 in total

1.  Comparison of model potentials for molecular-dynamics simulations of silica.

Authors:  Daniel Herzbach; Kurt Binder; Martin H Müser
Journal:  J Chem Phys       Date:  2005-09-22       Impact factor: 3.488

2.  Multiparadigm modeling of dynamical crack propagation in silicon using a reactive force field.

Authors:  Markus J Buehler; Adri C T van Duin; William A Goddard
Journal:  Phys Rev Lett       Date:  2006-03-10       Impact factor: 9.161

3.  General-Purpose Machine Learning Potentials Capturing Nonlocal Charge Transfer.

Authors:  Tsz Wai Ko; Jonas A Finkler; Stefan Goedecker; Jörg Behler
Journal:  Acc Chem Res       Date:  2021-01-29       Impact factor: 22.384

4.  Uncertainty estimation for molecular dynamics and sampling.

Authors:  Giulio Imbalzano; Yongbin Zhuang; Venkat Kapil; Kevin Rossi; Edgar A Engel; Federico Grasselli; Michele Ceriotti
Journal:  J Chem Phys       Date:  2021-02-21       Impact factor: 3.488

Review 5.  First Principles Neural Network Potentials for Reactive Simulations of Large Molecular and Condensed Systems.

Authors:  Jörg Behler
Journal:  Angew Chem Int Ed Engl       Date:  2017-08-18       Impact factor: 15.336

6.  Representing Global Reactive Potential Energy Surfaces Using Gaussian Processes.

Authors:  Brian Kolb; Paul Marshall; Bin Zhao; Bin Jiang; Hua Guo
Journal:  J Phys Chem A       Date:  2017-03-23       Impact factor: 2.781

7.  First-principles calculation of NMR parameters using the gauge including projector augmented wave method: a chemist's point of view.

Authors:  Christian Bonhomme; Christel Gervais; Florence Babonneau; Cristina Coelho; Frédérique Pourpoint; Thierry Azaïs; Sharon E Ashbrook; John M Griffin; Jonathan R Yates; Francesco Mauri; Chris J Pickard
Journal:  Chem Rev       Date:  2012-11-01       Impact factor: 60.622

8.  Sub-Angstrom Characterization of the Structural Origin for High In-Plane Anisotropy in 2D GeS2.

Authors:  Xudong Wang; Jieling Tan; Chengqian Han; Jiang-Jing Wang; Lu Lu; Hongchu Du; Chun-Lin Jia; Volker L Deringer; Jian Zhou; Wei Zhang
Journal:  ACS Nano       Date:  2020-04-14       Impact factor: 15.881

Review 9.  Neural Network Potential Energy Surfaces for Small Molecules and Reactions.

Authors:  Sergei Manzhos; Tucker Carrington
Journal:  Chem Rev       Date:  2020-10-06       Impact factor: 60.622

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  10 in total

1.  A Hybrid Machine Learning Approach for Structure Stability Prediction in Molecular Co-crystal Screenings.

Authors:  Simon Wengert; Gábor Csányi; Karsten Reuter; Johannes T Margraf
Journal:  J Chem Theory Comput       Date:  2022-06-16       Impact factor: 6.578

Review 2.  Implicit Solvation Methods for Catalysis at Electrified Interfaces.

Authors:  Stefan Ringe; Nicolas G Hörmann; Harald Oberhofer; Karsten Reuter
Journal:  Chem Rev       Date:  2021-12-20       Impact factor: 72.087

3.  Ionic strength-sensitive and pH-insensitive interactions between C-reactive protein (CRP) and an anti-CRP antibody.

Authors:  Yuka Oka; Shota Ushiba; Naruto Miyakawa; Madoka Nishio; Takao Ono; Yasushi Kanai; Yohei Watanabe; Shinsuke Tani; Masahiko Kimura; Kazuhiko Matsumoto
Journal:  Biophys Physicobiol       Date:  2022-02-09

4.  DNAzyme-Amplified Electrochemical Biosensor Coupled with pH Meter for Ca2+ Determination at Variable pH Environments.

Authors:  Hui Wang; Fan Zhang; Yue Wang; Fangquan Shi; Qingyao Luo; Shanshan Zheng; Junhong Chen; Dingzhen Dai; Liang Yang; Xiangfang Tang; Benhai Xiong
Journal:  Nanomaterials (Basel)       Date:  2021-12-21       Impact factor: 5.076

5.  Machine learning potential for interacting dislocations in the presence of free surfaces.

Authors:  Daniele Lanzoni; Fabrizio Rovaris; Francesco Montalenti
Journal:  Sci Rep       Date:  2022-03-08       Impact factor: 4.379

6.  Integration of Machine Learning and Coarse-Grained Molecular Simulations for Polymer Materials: Physical Understandings and Molecular Design.

Authors:  Danh Nguyen; Lei Tao; Ying Li
Journal:  Front Chem       Date:  2022-01-24       Impact factor: 5.221

7.  Water Flow in Single-Wall Nanotubes: Oxygen Makes It Slip, Hydrogen Makes It Stick.

Authors:  Fabian L Thiemann; Christoph Schran; Patrick Rowe; Erich A Müller; Angelos Michaelides
Journal:  ACS Nano       Date:  2022-06-21       Impact factor: 18.027

8.  Machine learning-based analysis of overall stability constants of metal-ligand complexes.

Authors:  Kaito Kanahashi; Makoto Urushihara; Kenji Yamaguchi
Journal:  Sci Rep       Date:  2022-07-25       Impact factor: 4.996

Review 9.  Uncertainty quantification: Can we trust artificial intelligence in drug discovery?

Authors:  Jie Yu; Dingyan Wang; Mingyue Zheng
Journal:  iScience       Date:  2022-07-21

10.  High-Content Screening and Analysis of Stem Cell-Derived Neural Interfaces Using a Combinatorial Nanotechnology and Machine Learning Approach.

Authors:  Letao Yang; Brian M Conley; Jinho Yoon; Christopher Rathnam; Thanapat Pongkulapa; Brandon Conklin; Yannan Hou; Ki-Bum Lee
Journal:  Research (Wash D C)       Date:  2022-09-14
  10 in total

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