0000000000336199
AUTHOR
Antti Pihlajamäki
A method for structure prediction of metal-ligand interfaces of hybrid nanoparticles
Hybrid metal nanoparticles, consisting of a nano-crystalline metal core and a protecting shell of organic ligand molecules, have applications in diverse areas such as biolabeling, catalysis, nanomedicine, and solar energy. Despite a rapidly growing database of experimentally determined atom-precise nanoparticle structures and their properties, there has been no successful, systematic way to predict the atomistic structure of the metal-ligand interface. Here, we devise and validate a general method to predict the structure of the metal-ligand interface of ligand-stabilized gold and silver nanoparticles, based on information about local chemical environments of atoms in experimental data. In …
Monte Carlo Simulations of Au38(SCH3)24 Nanocluster Using Distance-Based Machine Learning Methods
We present an implementation of distance-based machine learning (ML) methods to create a realistic atomistic interaction potential to be used in Monte Carlo simulations of thermal dynamics of thiol...
Density-functional tight-binding modeling of electromechanics of phosphorene
Single-layer black phosphorus or phosphorene is a two-dimensional material made from a puckered honeycomb structure. It is a semiconductor with a tunable band gap and both its mechanical and electronic properties are highly asymmetric because of the puckering. Recently there has been numerous computational studies and some experimental works trying to bring deeper understanding about this relatively new 2D material. In this study we simulate phosphorene using computationally low-cost density functional tight-binding (DFTB) method to see how stretching, shearing and bending affect its electronic properties. The band structure analysis shows that there is a relation between shearing and bendi…
Orientation Adaptive Minimal Learning Machine for Directions of Atomic Forces
Machine learning (ML) force fields are one of the most common applications of ML in nanoscience. However, commonly these methods are trained on potential energies of atomic systems and force vectors are omitted. Here we present a ML framework, which tackles the greatest difficulty on using forces in ML: accurate prediction of force direction. We use the idea of Minimal Learning Machine to device a method which can adapt to the orientation of an atomic environment to estimate the directions of force vectors. The method was tested with linear alkane molecules. peerReviewed
Machine Learning for Predicting Chemical Potentials of Multifunctional Organic Compounds in Atmospherically Relevant Solutions
We have trained the Extreme Minimum Learning Machine (EMLM) machine learning model to predict chemical potentials of individual conformers of multifunctional organic compounds containing carbon, hydrogen, and oxygen. The model is able to predict chemical potentials of molecules that are in the size range of the training data with a root-mean-square error (RMSE) of 0.5 kcal/mol. There is also a linear correlation between calculated and predicted chemical potentials of molecules that are larger than those included in the training set. Finding the lowest chemical potential conformers is useful in condensed phase thermodynamic property calculations, in order to reduce the number of computationa…
Kernels and Graphs on M25 + H (parent repository)
The repository contains codes related to article "Graphs and Kernelized Learning Applied to Interactions of Hydrogen with Doped Gold Nanoparticle Electrocatalysts". There are two main types of codes: codes to transform a catalytic system of protected gold nanoparticle and a single hydrogen atom into a graph-based representation, and codes to run kernel-based machine learning methods to predict interaction energies between the nanoparticle and the hydrogen atom. This is the metadata for the parent repository of the codes. Updates and possible corrections are documented in the GitLab project, where the material saved and shared. The GitLab project can be found and downloaded from the followin…