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Machine learning prediction of self-diffusion in Lennard-Jones fluids

Journal Article · · Journal of Chemical Physics
DOI:https://doi.org/10.1063/5.0011512· OSTI ID:1670740

In this work, different machine learning (ML) methods were explored for the prediction of self-diffusion in Lennard-Jones (LJ) fluids. Using a database of diffusion constants obtained from the molecular dynamics simulation literature, multiple Random Forest (RF) and Artificial Neural Net (ANN) regression models were developed and characterized. The role and improved performance of feature engineering coupled to the RF model development was also addressed. The performance of these different ML models was evaluated by comparing the prediction error to an existing empirical relationship used to describe LJ fluid diffusion. It was found that the ANN regression models provided superior prediction of diffusion in comparison to the existing empirical relationships.

Research Organization:
Sandia National Laboratories (SNL-NM), Albuquerque, NM (United States)
Sponsoring Organization:
USDOE National Nuclear Security Administration (NNSA); USDOE Laboratory Directed Research and Development (LDRD) Program
Grant/Contract Number:
AC04-94AL85000; NA0003525
OSTI ID:
1670740
Alternate ID(s):
OSTI ID: 1638559
Report Number(s):
SAND--2020-7333J; 687443
Journal Information:
Journal of Chemical Physics, Journal Name: Journal of Chemical Physics Journal Issue: 3 Vol. 153; ISSN 0021-9606
Publisher:
American Institute of Physics (AIP)Copyright Statement
Country of Publication:
United States
Language:
English

References (76)

Machine Learning in Materials Science book January 2016
Modeling Diffusion in Functional Materials: From Density Functional Theory to Artificial Intelligence journal July 2019
Molecular dynamics simulation of self-diffusion coefficient and its relation with temperature using simple Lennard-Jones potential journal January 2008
Machine learning in materials science journal August 2019
Hyperparameters and tuning strategies for random forest
  • Probst, Philipp; Wright, Marvin N.; Boulesteix, Anne‐Laure
  • Wiley Interdisciplinary Reviews: Data Mining and Knowledge Discovery, Vol. 9, Issue 3 https://doi.org/10.1002/widm.1301
journal November 2018
Random Forests book January 2012
Applied Predictive Modeling book January 2013
Diffusion and viscosity equations of state for a Lennard-Jones fluid obtained from molecular dynamics simulations journal September 1997
Prediction of Self-Diffusion Coefficients of Fluids Based on Friction and Free Volume Theories journal May 2015
Diffusion coefficient prediction of acids in water at infinite dilution by QSPR method journal October 2011
Molecular-dynamical calculations of the self-diffusion coefficient below the critical density journal June 1975
Computer simulation studies of the liquid state journal January 1973
The self-diffusion coefficient in the gas phase at moderate densities, obtained by computer simulations journal February 1978
A neural network-based method for estimation of binary gas diffusivity journal December 2010
Determination of binary diffusion coefficients of hydrocarbon mixtures using MLP and ANFIS networks based on QSPR method journal March 2014
A QSPR model for prediction of diffusion coefficient of non-electrolyte organic compounds in air at ambient condition journal March 2012
Modeling the adsorption of PAH mixture in silica nanopores by molecular dynamic simulation combined with machine learning journal February 2016
The Electrolyte Genome project: A big data approach in battery materials discovery journal June 2015
A survey on feature selection methods journal January 2014
Stochastic thermostats: comparison of local and global schemes journal July 2008
Developing a feed forward neural network multilayer model for prediction of binary diffusion coefficient in liquids journal October 2012
Unified approach to the self-diffusion coefficients of dense fluids over wide ranges of temperature and pressure—hard-sphere, square-well, Lennard–Jones and real substances journal July 1998
Prediction of diffusion coefficients for gas, liquid and supercritical fluid: application to pure real fluids and infinite dilute binary solutions based on the simulation of Lennard–Jones fluid journal March 2002
Machine Learning To Predict Standard Enthalpy of Formation of Hydrocarbons journal August 2019
Self-Diffusion of Surface Defects at Copper–Water Interfaces journal February 2017
Electrostatic Estimation of Intercalant Jump-Diffusion Barriers Using Finite-Size Ion Models journal January 2018
Effects of Temperature Control Algorithms on Transport Properties and Kinetics in Molecular Dynamics Simulations journal June 2013
Determination of Diffusion Coefficient of Organic Compounds in Water Using a Simple Molecular-Based Method journal January 2012
Representation and Prediction of Molecular Diffusivity of Nonelectrolyte Organic Compounds in Water at Infinite Dilution Using the Artificial Neural Network-Group Contribution Method journal May 2011
System-Size Dependence of Diffusion Coefficients and Viscosities from Molecular Dynamics Simulations with Periodic Boundary Conditions journal October 2004
Alternative Approach to Chemical Accuracy: A Neural Networks-Based First-Principles Method for Heat of Formation of Molecules Made of H, C, N, O, F, S, and Cl journal June 2014
Accelerating Electrolyte Discovery for Energy Storage with High-Throughput Screening journal January 2015
Random Forests journal January 2001
Gene Selection for Cancer Classification using Support Vector Machines journal January 2002
Machine learning in materials informatics: recent applications and prospects journal December 2017
New frontiers for the materials genome initiative journal April 2019
Recent advances and applications of machine learning in solid-state materials science journal August 2019
Machine learning for molecular and materials science journal July 2018
Prediction Model of Organic Molecular Absorption Energies based on Deep Learning trained by Chaos-enhanced Accelerated Evolutionary algorithm journal November 2019
Prediction of nanoparticle transport behavior from physicochemical properties: machine learning provides insights to guide the next generation of transport models journal January 2015
Deep neural network learning of complex binary sorption equilibria from molecular simulation data journal January 2019
Self-diffusion and shear viscosity of simple fluids. A molecular-dynamics study journal January 1983
Viscosity and self-diffusion of simple liquids. Hard-sphere treatment of molecular dynamics data journal January 1987
Role of attractive forces in self‐diffusion in dense Lennard‐Jones fluids journal October 1973
Transport coefficients of the Lennard-Jones model fluid. II Self-diffusion journal November 2004
Canonical sampling through velocity rescaling journal January 2007
Molecular dynamics simulation of real‐fluid mutual diffusion coefficients with the Lennard‐Jones potential model journal September 1989
Effect of the computational domain size and shape on the self-diffusion coefficient in a Lennard-Jones liquid journal January 2015
Study of Li atom diffusion in amorphous Li3PO4 with neural network potential journal December 2017
Molecular dynamics simulation of dense gases: I. Test particle motion† Research supported by the U.S. Energy Research and Development Administration at Argonne National Laboratory and by NSF Contract CHE75-00329. journal November 1977
A memory function model for the velocity autocorrelation function and the self-diffusion coefficient in simple dense fluids journal June 1979
The mutual diffusion coefficient D 12 in liquid model mixtures A molecular dynamics study based on Lennard-Jones (12-6) potentials: II. Lorentz-Berthelot mixtures journal August 1984
Diffusion in the hard sphere fluid journal October 1987
Diffusion in simple fluids journal February 1989
Information theory applied to the transport coefficients of Lennard-Jones fluids journal November 1990
Molecular dynamics computer simulations of binary Lennard-Jones fluid mixtures: Thermodynamics of mixing and transport coefficients journal May 1991
Analysis of the role of attractive forces in self-diffusion of a simple fluid journal June 1992
Information theory applied to the transport coefficients of Lennard-Jones fluids II journal January 1993
Cohesion journal September 1931
A method for the solution of certain non-linear problems in least squares journal January 1944
A new family of power transformations to improve normality or symmetry journal December 2000
On the Determination of Molecular Fields. I. From the Variation of the Viscosity of a Gas with Temperature journal October 1924
On the Determination of Molecular Fields. II. From the Equation of State of a Gas journal October 1924
Exact molecular dynamics and kinetic theory results for thermal transport coefficients of the Lennard-Jones argon fluid in a wide region of states journal July 1990
Self-diffusion coefficient for the hard-sphere fluid journal April 1991
Transport coefficients of Lennard-Jones fluids: A molecular-dynamics and effective-hard-sphere treatment journal April 1988
Learning scheme to predict atomic forces and accelerate materials simulations journal September 2015
Correct microcanonical ensemble in molecular dynamics journal May 1999
Dynamic properties of Lennard-Jones fluids and liquid metals journal July 1999
Fast and Accurate Modeling of Molecular Atomization Energies with Machine Learning journal January 2012
An Analysis of Transformations journal July 1964
An Algorithm for Least-Squares Estimation of Nonlinear Parameters journal June 1963
Materials Data Science: Current Status and Future Outlook journal July 2015
Usporedna studija predviđanja koeficijenta molekularne difuzije za polarni i nepolarni binarni plin pomoću neuronskih mreža i višestrukih linearnih regresija journal January 2019
Theory-Guided Machine Learning in Materials Science journal June 2016
Assessing Local Structure Motifs Using Order Parameters for Motif Recognition, Interstitial Identification, and Diffusion Path Characterization journal November 2017