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Accurate prediction of global-density-dependent range-separation parameters based on machine learning

Journal Article · · Journal of Chemical Physics
DOI:https://doi.org/10.1063/5.0157340· OSTI ID:2422868

In this work, we develop an accurate and efficient XGBoost machine learning model for predicting the global-density-dependent range-separation parameter, ωGDD, for long-range corrected functional (LRC)-ωPBE. This ωGDDML model has been built using a wide range of systems (11 466 complexes, ten different elements, and up to 139 heavy atoms) with fingerprints for the local atomic environment and histograms of distances for the long-range atomic correlation for mapping the quantum mechanical range-separation values. The promising performance on the testing set with 7046 complexes shows a mean absolute error of 0.001 117 a0−1 and only five systems (0.07%) with an absolute error larger than 0.01 a0−1, which indicates the good transferability of our ωGDDML model. In addition, the only required input to obtain ωGDDML is the Cartesian coordinates without electronic structure calculations, thereby enabling rapid predictions. LRC-ωPBE(ωGDDML) is used to predict polarizabilities for a series of oligomers, where polarizabilities are sensitive to the asymptotic density decay and are crucial in a variety of applications, including the calculations of dispersion corrections and refractive index, and surpasses the performance of all other popular density functionals except for the non-tuned LRC-ωPBE. Finally, LRC-ωPBE (ωGDDML) combined with (extended) symmetry-adapted perturbation theory is used in calculating noncovalent interactions to further show that the traditional ab initio system-specific tuning procedure can be bypassed. The present study not only provides an accurate and efficient way to determine the range-separation parameter for LRC-ωPBE but also shows the synergistic benefits of fusing the power of physically inspired density functional LRC-ωPBE and the data-driven ωGDDML model.

Research Organization:
Lawrence Berkeley National Laboratory (LBNL), Berkeley, CA (United States). National Energy Research Scientific Computing Center (NERSC)
Sponsoring Organization:
USDOE
Grant/Contract Number:
AC02-05CH11231
OSTI ID:
2422868
Journal Information:
Journal of Chemical Physics, Journal Name: Journal of Chemical Physics Journal Issue: 4 Vol. 159; ISSN 0021-9606
Publisher:
American Institute of Physics (AIP)Copyright Statement
Country of Publication:
United States
Language:
English

References (140)

Bond length alternation effects on the static electronic polarizability and second hyperpolarizability of polyacetylene chains journal January 1999
Supramolecular Binding Thermodynamics by Dispersion-Corrected Density Functional Theory journal July 2012
Influence of the Delocalization Error and Applicability of Optimal Functional Tuning in Density Functional Calculations of Nonlinear Optical Properties of Organic Donor-Acceptor Chromophores journal June 2013
Revisiting the relationship between the bond length alternation and the first hyperpolarizability with range‐separated hybrid functionals journal October 2007
Effect of the damping function in dispersion corrected density functional theory journal March 2011
Fully ab initio protein-ligand interaction energies with dispersion corrected density functional theory journal May 2012
A new nonempirical tuning scheme with single self-consistent field calculation: Comparison with global and IP-tuned range-separated functional journal July 2017
Linear polarizabilities and second hyperpolarizabilities of streptocyanines: Results from broken-Symmetry DFT and new CCSD(T) benchmarks journal October 2018
XGBoost‐based intelligence yield prediction and reaction factors analysis of amination reaction journal December 2021
The Electrotopological State: An Atom Index for QSAR journal January 1991
Extended tight‐binding quantum chemistry methods journal August 2020
A correlation between the mean polarizability of the “kinked” polycyclic aromatic hydrocarbons and the number of H…H bond critical points predicted by Atoms-in-Molecules theory journal February 2014
A new hybrid exchange–correlation functional using the Coulomb-attenuating method (CAM-B3LYP) journal July 2004
Choosing a density functional for static molecular polarizabilities journal August 2015
Molecular fingerprint similarity search in virtual screening journal January 2015
Chemical content of the kinetic energy density journal August 2000
First-Principles Models for van der Waals Interactions in Molecules and Materials: Concepts, Theory, and Applications journal March 2017
Machine Learning Enables Highly Accurate Predictions of Photophysical Properties of Organic Fluorescent Materials: Emission Wavelengths and Quantum Yields journal February 2021
Polarizabilities of π-Conjugated Chains Revisited: Improved Results from Broken-Symmetry Range-Separated DFT and New CCSD(T) Benchmarks journal July 2016
Prediction Errors of Molecular Machine Learning Models Lower than Hybrid DFT Error journal October 2017
Atomic Orbital Implementation of Extended Symmetry-Adapted Perturbation Theory (XSAPT) and Benchmark Calculations for Large Supramolecular Complexes journal April 2018
A Simple Correction for Nonadditive Dispersion within Extended Symmetry-Adapted Perturbation Theory (XSAPT) journal August 2018
GFN2-xTB—An Accurate and Broadly Parametrized Self-Consistent Tight-Binding Quantum Chemical Method with Multipole Electrostatics and Density-Dependent Dispersion Contributions journal January 2019
Improving the Performance of Long-Range-Corrected Exchange-Correlation Functional with an Embedded Neural Network journal September 2017
Charge Separation and Charge Transfer in the Low-Lying Excited States of Pentacene journal October 2020
Understanding Solid-State Solvation-Enhanced Thermally Activated Delayed Fluorescence Using a Descriptor-Tuned Screened Range-Separated Functional journal November 2018
Accelerated Discovery of High-Refractive-Index Polyimides via First-Principles Molecular Modeling, Virtual High-Throughput Screening, and Data Mining journal May 2019
Stacked Ensemble Machine Learning for Range-Separation Parameters journal September 2021
Accurate and Efficient ab Initio Calculations for Supramolecular Complexes: Symmetry-Adapted Perturbation Theory with Many-Body Dispersion journal May 2019
XGBoost: An Optimal Machine Learning Model with Just Structural Features to Discover MOF Adsorbents of Xe/Kr journal March 2021
Organic Electronic Materials: Recent Advances in the DFT Description of the Ground and Excited States Using Tuned Range-Separated Hybrid Functionals journal April 2014
The Generation of a Unique Machine Description for Chemical Structures-A Technique Developed at Chemical Abstracts Service. journal May 1965
Electrotopological State Indices for Atom Types: A Novel Combination of Electronic, Topological, and Valence State Information journal November 1995
SMILES, a chemical language and information system. 1. Introduction to methodology and encoding rules journal February 1988
Extended-Connectivity Fingerprints journal April 2010
Plane of Best Fit: A Novel Method to Characterize the Three-Dimensionality of Molecules journal September 2012
Prediction of Physicochemical Parameters by Atomic Contributions journal August 1999
S66: A Well-balanced Database of Benchmark Interaction Energies Relevant to Biomolecular Structures journal July 2011
Tuned Range-Separated Time-Dependent Density Functional Theory Applied to Optical Rotation journal December 2011
Excitation Gaps of Finite-Sized Systems from Optimally Tuned Range-Separated Hybrid Functionals journal April 2012
Nonempirically Tuned Range-Separated DFT Accurately Predicts Both Fundamental and Excitation Gaps in DNA and RNA Nucleobases journal July 2012
Accuracy of Quantum Chemical Methods for Large Noncovalent Complexes journal July 2013
Pair-Wise and Many-Body Dispersive Interactions Coupled to an Optimally Tuned Range-Separated Hybrid Functional journal July 2013
Assessment of Tuning Methods for Enforcing Approximate Energy Linearity in Range-Separated Hybrid Functionals journal September 2013
Electronic Energy Gaps for π-Conjugated Oligomers and Polymers Calculated with Density Functional Theory journal February 2014
Performance of an Optimally Tuned Range-Separated Hybrid Functional for 0–0 Electronic Excitation Energies journal March 2014
Theoretical Study of the Local and Charge-Transfer Excitations in Model Complexes of Pentacene-C 60 Using Tuned Range-Separated Hybrid Functionals journal May 2014
Reliable Prediction of Charge Transfer Excitations in Molecular Complexes Using Time-Dependent Density Functional Theory journal March 2009
Both Intra- and Interstrand Charge-Transfer Excited States in Aqueous B-DNA Are Present at Energies Comparable To, or Just Above, the 1 ππ* Excitonic Bright States journal March 2009
970 Million Druglike Small Molecules for Virtual Screening in the Chemical Universe Database GDB-13 journal July 2009
The Hydrated Electron at the Surface of Neat Liquid Water Appears To Be Indistinguishable from the Bulk Species journal August 2016
Adiabatic Connection for Kinetics journal June 2000
Search for Low Energy Structures of Water Clusters (H 2 O) n , n = 20−22, 48, 123, and 293 journal November 2003
Ab Initio Quantum Chemistry for Protein Structures journal October 2012
Evolution of Electric Dipole (Hyper)polarizabilities of β-Strand Polyglycine Single Chains: An ab Initio and DFT Theoretical Study journal June 2013
The Charge Transfer Problem in Density Functional Theory Calculations of Aqueously Solvated Molecules journal October 2013
Density-Dependent Onset of the Long-Range Exchange: A Key to Donor–Acceptor Properties journal November 2013
Optical Spectroscopy of the Bulk and Interfacial Hydrated Electron from Ab Initio Calculations journal March 2014
Benchmarking Quantum Chemical Methods for the Calculation of Molecular Dipole Moments and Polarizabilities journal May 2014
Accurate and Efficient Quantum Chemistry Calculations for Noncovalent Interactions in Many-Body Systems: The XSAPT Family of Methods journal December 2014
Quantitative Structure−Property Relationships for Longitudinal, Transverse, and Molecular Static Polarizabilities in Polyynes journal June 2008
Assessment of Conventional Density Functional Schemes for Computing the Dipole Moment and (Hyper)polarizabilities of Push−Pull π-Conjugated Systems journal April 2000
The Harvard Clean Energy Project: Large-Scale Computational Screening and Design of Organic Photovoltaics on the World Community Grid journal August 2011
Accurate Intermolecular Interactions at Dramatically Reduced Cost: XPol+SAPT with Empirical Dispersion journal October 2012
Design of efficient molecular organic light-emitting diodes by a high-throughput virtual screening and experimental approach journal August 2016
Quantum mechanical static dipole polarizabilities in the QM7b and AlphaML showcase databases journal August 2019
The Harvard organic photovoltaic dataset journal September 2016
Long-range corrected hybrid density functionals with damped atom–atom dispersion corrections journal January 2008
Lowest excited states and optical absorption spectra of donor–acceptor copolymers for organic photovoltaics: a new picture emerging from tuned long-range corrected density functionals journal January 2012
Water clusters to nanodrops: a tight-binding density functional study journal January 2013
Lead candidates for high-performance organic photovoltaics from high-throughput quantum chemistry – the Harvard Clean Energy Project journal January 2014
Assessing long-range corrected functionals with physically-adjusted range-separated parameters for calculating the polarizability and the second hyperpolarizability of polydiacetylene and polybutatriene chains journal January 2014
The S66x8 benchmark for noncovalent interactions revisited: explicitly correlated ab initio methods and density functional theory journal January 2016
Generalized-active-space pair-density functional theory: an efficient method to study large, strongly correlated, conjugated systems journal January 2017
How accurate are static polarizability predictions from density functional theory? An assessment over 132 species at equilibrium geometry journal January 2018
Benchmarking DFT approaches for the calculation of polarizability inputs for refractive index predictions in organic polymers journal January 2019
Density matrix renormalization group pair-density functional theory (DMRG-PDFT): singlet–triplet gaps in polyacenes and polyacetylenes journal January 2019
A new tuned range-separated density functional for the accurate calculation of second hyperpolarizabilities journal January 2020
Electron confinement meet electron delocalization: non-additivity and finite-size effects in the polarizabilities and dispersion coefficients of the fullerenes journal January 2021
How well do self-interaction corrections repair the overestimation of static polarizabilities in density functional calculations? journal January 2021
A long-range correction scheme for generalized-gradient-approximation exchange functionals journal August 2001
Accurate polymer polarizabilities with exact exchange density-functional theory journal December 2003
A long-range-corrected time-dependent density functional theory journal May 2004
Density-functional theory (hyper)polarizabilities of push-pull π-conjugated systems: Treatment of exact exchange and role of correlation journal July 2005
Nonlinear optical property calculations by the long-range-corrected coupled-perturbed Kohn–Sham method journal June 2005
Polarizability and second hyperpolarizability evaluation of long molecules by the density functional theory with long-range correction journal January 2007
Assessment of the efficiency of long-range corrected functionals for some properties of large compounds journal April 2007
Calculation of electric dipole (hyper)polarizabilities by long-range-correction scheme in density functional theory: A systematic assessment for polydiacetylene and polybutatriene oligomers journal March 2008
Coupled-cluster dynamic polarizabilities including triple excitations journal June 2008
Nonlinear optical property calculations of polyynes with long-range corrected hybrid exchange-correlation functionals journal July 2008
Simultaneous benchmarking of ground- and excited-state properties with long-range-corrected density functional theory journal July 2008
A long-range-corrected density functional that performs well for both ground-state properties and time-dependent density functional theory excitation energies, including charge-transfer excited states journal February 2009
On the accurate calculation of polarizabilities and second hyperpolarizabilities of polyacetylene oligomer chains using the CAM-B3LYP density functional journal May 2009
Can short-range hybrids describe long-range-dependent properties? journal July 2009
Accurate dipole polarizabilities for water clusters n=2–12 at the coupled-cluster level of theory and benchmarking of various density functionals journal December 2009
Prediction of charge-transfer excitations in coumarin-based dyes using a range-separated functional tuned from first principles journal December 2009
A consistent and accurate ab initio parametrization of density functional dispersion correction (DFT-D) for the 94 elements H-Pu journal April 2010
Property-optimized Gaussian basis sets for molecular response calculations journal October 2010
Communication: Tailoring the optical gap in light-harvesting molecules journal April 2011
Long-range corrected hybrid functionals for π-conjugated systems: Dependence of the range-separation parameter on conjugation length journal November 2011
Density‐functional thermochemistry. III. The role of exact exchange journal April 1993
Gaussian basis sets for use in correlated molecular calculations. IV. Calculation of static electrical response properties journal February 1994
Benchmark theoretical study of the electric polarizabilities of naphthalene, anthracene, and tetracene journal January 2013
Assessment of conventional density functional schemes for computing the polarizabilities and hyperpolarizabilities of conjugated oligomers: An ab initio investigation of polyacetylene chains journal December 1998
Toward reliable density functional methods without adjustable parameters: The PBE0 model journal April 1999
Water nanodroplets: Predictions of five model potentials journal May 2013
An improved treatment of empirical dispersion and a many-body energy decomposition scheme for the explicit polarization plus symmetry-adapted perturbation theory (XSAPT) method journal July 2013
Symmetry-adapted perturbation theory with Kohn-Sham orbitals using non-empirically tuned, long-range-corrected density functionals journal January 2014
mBEEF: An accurate semi-local Bayesian error estimation density functional journal April 2014
Charge-transfer excitations in low-gap systems under the influence of solvation and conformational disorder: Exploring range-separation tuning journal August 2014
Tuned range-separated hybrid functionals in the symmetry-adapted perturbation theory journal October 2014
Polarisabilities of long conjugated chain molecules with density functional response methods: The role of coupled and uncoupled response journal April 2015
SCAN-based hybrid and double-hybrid density functionals from models without fitted parameters journal January 2016
Communication: Understanding molecular representations in machine learning: The role of uniqueness and target similarity journal October 2016
Combining first-principles and data modeling for the accurate prediction of the refractive index of organic polymers journal June 2018
On the geometric dependence of the molecular dipole polarizability in water: A benchmark study of higher-order electron correlation, basis set incompleteness error, core electron effects, and zero-point vibrational contributions journal November 2018
Machine learning models of the energy curvature vs particle number for optimal tuning of long-range corrected functionals journal April 2020
Static dipole polarizabilities of polyacenes using self-interaction-corrected density functional approximations journal March 2021
Software for the frontiers of quantum chemistry: An overview of developments in the Q-Chem 5 package journal August 2021
Simplified tuning of long-range corrected density functionals for use in symmetry-adapted perturbation theory journal July 2021
Static polarizabilities within the generalized Kohn–Sham semicanonical projected random phase approximation (GKS-spRPA) journal October 2022
Accurate molecular polarizabilities with coupled cluster theory and machine learning journal February 2019
Influence of the long-range exchange effect on dynamic polarizability journal August 2005
Difficulties in applying pure Kohn–Sham density functional theory electronic structure methods to protein molecules journal January 2012
Electrostatic considerations affecting the calculated HOMO–LUMO gap in protein molecules journal March 2013
Applications of large-scale density functional theory in biology journal August 2016
Machine learning of molecular electronic properties in chemical compound space journal September 2013
Decomposing Hofmeister effects on amino acid residues with symmetry adapted perturbation theory journal March 2023
Predicting tensorial molecular properties with equivariant machine learning models journal April 2022
Development of the Colle-Salvetti correlation-energy formula into a functional of the electron density journal January 1988
Fundamental and excitation gaps in molecules of relevance for organic photovoltaics from an optimally tuned range-separated hybrid functional journal August 2011
On representing chemical environments journal May 2013
Fundamental Gaps in Finite Systems from Eigenvalues of a Generalized Kohn-Sham Method journal December 2010
Fast and Accurate Modeling of Molecular Atomization Energies with Machine Learning journal January 2012
Symmetry-Adapted Machine Learning for Tensorial Properties of Atomistic Systems journal January 2018
Electric Field Dependence of the Exchange-Correlation Potential in Molecular Chains journal July 1999
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Tuned Range-Separated Hybrids in Density Functional Theory journal March 2010
Open Babel: An open chemical toolbox journal October 2011
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