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Modelling and understanding the structure of graphene oxide materials with machine-learning-driven simulations

Lead Research Organisation: University of Oxford
Department Name: Oxford Chemistry

Abstract

Graphene, a two-dimensional sheet of carbon atoms with a honeycomb structure, has evolved from academic interest to large-scale industrial production. Graphene itself is elementally pure, but there exists a wide range of chemically modified materials that are summarily called "graphene oxide" (GO). In GO, the graphene honeycomb is broken up by various types of hydrogen- and oxygen-based functional groups ("hydroxyl", "epoxy", and others, similar to what is found in organic molecules). The functional groups in GO are not just of fundamental interest, but they are thought to be primarily responsible for practical applications - for example, in catalysis, where they define the active centres at which one molecule is transformed into another.

Graphene itself has an ordered atomic structure, but GO much less so, because of the large structural and chemical diversity. This structure is incompletely understood until today, and this has strongly hindered the progress of fundamental research and the commercial exploitation of GO alike.

The aim of the present project is to develop and deploy a new computer simulation methodology, based on machine learning (ML) from accurate quantum-mechanical data, to understand the atomic structure of GO in a way that was not previously possible. A digital "library" of simulated structures will be systematically assembled, representing the range of possible chemical modifications in much more realistic detail than established simulation methods could afford. The project will lead to a new interatomic potential ("force field") that researchers can use to simulate GO on the atomistic scale. The project will also predict a catalogue of accurately computed spectroscopic fingerprints for the microscopic structure of GO materials: this will help to decipher the outcome of various experimental measurements that are used every day in academic and industrial laboratories. The resulting datasets will be openly distributed to maximise the project's academic impact.

The present research is theoretical and computational in nature, but it is expected to have a direct practical implication: by allowing chemists, physicists, and materials scientists to establish new connections between the atomistic structure of GO on the one hand, and technologically relevant properties on the other hand. It is therefore an example for how computational chemistry, accelerated by new machine-learning approaches, can reach a previously unavailable degree of realism in the modelling of complex functional materials.

Publications

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Description The aim of this project was to develop computer simulation approaches to improve our understanding of the structure of graphene oxide (GO) materials. These materials are of interest for basic research and practical applications, but they have highly complex microscopic (atomic-scale) structures that are difficult to determine. In this project, we have fitted interatomic potential models - describing the energetic stability of a given structure and the forces acting on atoms - based on machine learning (ML) from quantum-mechanical data. We used the UK National Supercomputing Service, ARCHER2, to create data with which to "train" the ML models, and we gradually improved these models with more data. We used these ML potentials to create large-scale atomistic models of GO and to describe how these structures change at high temperature, which can be compared to experiments performed previously by others and form a basis for further computational work. Key results of the project have been published recently, and further work building on these results is ongoing.
Exploitation Route The project has generated research data which have been made openly available. These data could help others to carry out simulations of graphene oxide materials and to understand these materials more closely.
Sectors Electronics

Energy

 
Title Research data for "Accelerated First-Principles Exploration of Structure and Reactivity in Graphene Oxide" 
Description This dataset supports a recent publication and is openly available (with a CC BY licence). It provides model parameters, structural data, and relevant results from quantum-mechanical computations that allow others to build on our research. It also includes specialised code used to create structural models of graphene oxide. 
Type Of Material Database/Collection of data 
Year Produced 2024 
Provided To Others? Yes  
Impact This dataset is associated with our publication "Accelerated First-Principles Exploration of Structure and Reactivity in Graphene Oxide" (https://doi.org/10.1002/anie.202410088). 
URL https://zenodo.org/records/14066557
 
Title Research data for "Exploring the configurational space of amorphous graphene with machine-learned atomic energies" 
Description This dataset supports the paper: "Exploring the configurational space of amorphous graphene with machine-learned atomic energies" (https://doi.org/10.1039/D2SC04326B). Trajectory data for the 200-atom structures (Fig. 3) and the final configurations for the 612-atom structures as well as the GAP-17-optimised 610-atom structure from Toh et al are provided (Fig. 4). Additionally, the structures used for data analysis in Fig. 5 are given. The files are in extended xyz (.xyz) format and contain the raw data for coordinates, forces, and atomic energies (labelled 'c_1'). The files also contain the atomic energies relative to pristine graphene, labelled "Energy_per_atom", and the locally averaged energy relative to pristine graphene, labelled "NN_Energy_per_atom". Topological information is included at the end of the .xyz file for the 612-atom structures ('fig_4'/) and for the structures in 'fig_5/'. All raw atomic energies were computed using LAMMPS default settings and were output with six significant figures, with the exception of the Toh et al. structure (for which ASE was used, outputting a higher number of significant figures). The data can be read using, for example, the Atomic Simulation Environment (ASE), or visualised using Ovito. 
Type Of Material Database/Collection of data 
Year Produced 2022 
Provided To Others? Yes  
Impact This dataset is associated with our publication on amorphous graphene structures (https://doi.org/10.1039/D2SC04326B). 
URL https://zenodo.org/record/7221165