Literature DB >> 31270326

Energy refinement and analysis of structures in the QM9 database via a highly accurate quantum chemical method.

Hyungjun Kim1, Ji Young Park2, Sunghwan Choi3.   

Abstract

A wide variety of data-driven approaches have been introduced in the field of quantum chemistry. To extend the applicable range and improve the prediction power of those approaches, highly accurate quantum chemical benchmarks that cover extremely large chemical spaces are required. Here, we report ~134 k quantum chemical calculations performed with G4MP2, the fourth generation of the G-n series in which second-order perturbation theory is employed. A single composite method calculation executes several low-level calculations to reproduce the results of high-level ab initio calculations with the aim of saving computational costs. Therefore, our database reports the results of the various methods (e.g., density functional theory, Hartree-Fock, Møller-Plesset perturbation theory, and coupled-cluster theory). Additionally, we examined the structure information of both the QM9 and the revised databases via chemical graph analysis. Our database can be applied to refine and improve the quality of data-driven quantum chemical prediction. Furthermore, we reported the raw outputs of all calculations performed in this work for other potential applications.

Entities:  

Year:  2019        PMID: 31270326      PMCID: PMC6610095          DOI: 10.1038/s41597-019-0121-7

Source DB:  PubMed          Journal:  Sci Data        ISSN: 2052-4463            Impact factor:   6.444


  24 in total

1.  Big Data Meets Quantum Chemistry Approximations: The Δ-Machine Learning Approach.

Authors:  Raghunathan Ramakrishnan; Pavlo O Dral; Matthias Rupp; O Anatole von Lilienfeld
Journal:  J Chem Theory Comput       Date:  2015-04-23       Impact factor: 6.006

2.  Virtual exploration of the chemical universe up to 11 atoms of C, N, O, F: assembly of 26.4 million structures (110.9 million stereoisomers) and analysis for new ring systems, stereochemistry, physicochemical properties, compound classes, and drug discovery.

Authors:  Tobias Fink; Jean-Louis Reymond
Journal:  J Chem Inf Model       Date:  2007-01-30       Impact factor: 4.956

3.  970 million druglike small molecules for virtual screening in the chemical universe database GDB-13.

Authors:  Lorenz C Blum; Jean-Louis Reymond
Journal:  J Am Chem Soc       Date:  2009-07-01       Impact factor: 15.419

4.  Insights into current limitations of density functional theory.

Authors:  Aron J Cohen; Paula Mori-Sánchez; Weitao Yang
Journal:  Science       Date:  2008-08-08       Impact factor: 47.728

5.  druGAN: An Advanced Generative Adversarial Autoencoder Model for de Novo Generation of New Molecules with Desired Molecular Properties in Silico.

Authors:  Artur Kadurin; Sergey Nikolenko; Kuzma Khrabrov; Alex Aliper; Alex Zhavoronkov
Journal:  Mol Pharm       Date:  2017-08-04       Impact factor: 4.939

6.  Density functional theory is straying from the path toward the exact functional.

Authors:  Michael G Medvedev; Ivan S Bushmarinov; Jianwei Sun; John P Perdew; Konstantin A Lyssenko
Journal:  Science       Date:  2017-01-06       Impact factor: 47.728

7.  Enumeration of 166 billion organic small molecules in the chemical universe database GDB-17.

Authors:  Lars Ruddigkeit; Ruud van Deursen; Lorenz C Blum; Jean-Louis Reymond
Journal:  J Chem Inf Model       Date:  2012-11-01       Impact factor: 4.956

8.  In silico prediction of chemical acute oral toxicity using multi-classification methods.

Authors:  Xiao Li; Lei Chen; Feixiong Cheng; Zengrui Wu; Hanping Bian; Congying Xu; Weihua Li; Guixia Liu; Xu Shen; Yun Tang
Journal:  J Chem Inf Model       Date:  2014-04-16       Impact factor: 4.956

9.  Feasibility of Activation Energy Prediction of Gas-Phase Reactions by Machine Learning.

Authors:  Sunghwan Choi; Yeonjoon Kim; Jin Woo Kim; Zeehyo Kim; Woo Youn Kim
Journal:  Chemistry       Date:  2018-04-24       Impact factor: 5.236

10.  Quantum chemistry structures and properties of 134 kilo molecules.

Authors:  Raghunathan Ramakrishnan; Pavlo O Dral; Matthias Rupp; O Anatole von Lilienfeld
Journal:  Sci Data       Date:  2014-08-05       Impact factor: 6.444

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  5 in total

1.  Machine Learning for Electronically Excited States of Molecules.

Authors:  Julia Westermayr; Philipp Marquetand
Journal:  Chem Rev       Date:  2020-11-19       Impact factor: 60.622

2.  Physically inspired deep learning of molecular excitations and photoemission spectra.

Authors:  Julia Westermayr; Reinhard J Maurer
Journal:  Chem Sci       Date:  2021-06-30       Impact factor: 9.969

3.  High accuracy barrier heights, enthalpies, and rate coefficients for chemical reactions.

Authors:  Kevin Spiekermann; Lagnajit Pattanaik; William H Green
Journal:  Sci Data       Date:  2022-07-18       Impact factor: 8.501

Review 4.  Machine Learning Applications for Chemical Reactions.

Authors:  Sanggil Park; Herim Han; Hyungjun Kim; Sunghwan Choi
Journal:  Chem Asian J       Date:  2022-05-30

5.  VIB5 database with accurate ab initio quantum chemical molecular potential energy surfaces.

Authors:  Lina Zhang; Shuang Zhang; Alec Owens; Sergei N Yurchenko; Pavlo O Dral
Journal:  Sci Data       Date:  2022-03-11       Impact factor: 8.501

  5 in total

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