Posted onInDeePMD-kitWord count in article: 1.1kReading time ≈4 mins.
Water is not only one of the most familiar substances to humans but also a central figure in the long history of physical chemistry. The tetrahedral arrangement and network interactions between its molecules distinguish it from simple liquids.
For a long time, there has been no specific conclusion regarding whether there is a liquid - liquid critical point (LLCP) in water. Besides, researchers' understanding of water, especially when it acts as a solvent, is still incomplete.
To address the problem of technically and reasonably representing the thermodynamic and kinetic properties of water after the introduction of other chemical substances, a team from Seoul National University in South Korea proposed a scheme to examine the spatiotemporal characterization of water using a machine learning force field (MLFF) through deep potential molecular dynamics (DPMD).
This research, titled "Spatiotemporal characterization of water diffusion anomalies in saline solutions using machine learning force field", was published in "Science Advances" on December 11, 2024.
Currently, most water models are unable to fully capture the dynamic behavior of water after the addition of salt. Although classical force fields provide important insights, their simplifications and the omission of dynamic charge effects may distort our understanding of the real behavior of water.
The application advantages of MLFF in fields such as materials science and its processing speed, which is more than six orders of magnitude faster than first - principles methods in systems composed of several hundred atoms, make it stand out among all the options.
Posted onInUni-MolWord count in article: 895Reading time ≈3 mins.
DeepModeling community has officially released Uni-Mol2, which is currently the largest 3D molecular representation foundation model. The largest version of Uni-Mol2 has a parameter scale of 1.1 billion and has been pre-trained on 800 million molecular conformations, demonstrating excellent performance in multiple molecular property prediction tasks. This achievement not only provides a powerful tool for deep learning research in the field of molecular science but also lays a solid experimental foundation for exploring larger-scale molecular pre-training models. At the NeurIPS 2024 conference currently being held in Vancouver, Canada, Uni-Mol2, as an accepted paper, has also received extensive attention.
Posted onInDeePMD-kitWord count in article: 1.2kReading time ≈4 mins.
Recently, Associate Professor Xu Yang from the School of Science at Shenyang Aerospace University, in cooperation with Professor Fei Du and Professor Yi Zeng from Jilin University and other scholars, conducted an in-depth study on the cubic phase $K_{3}SbS_{4}$ solid-state electrolyte based on the DeePMD method. The related research results were published in the journal "Chemistry of Materials" under the title "Cl-Doped Cubic K3SbS4 as a Solid-State Electrolyte for K-Ion Batteries with Ultrafast Ionic Conductivity" (DOI: 10.1021/acs.chemmater.4c02575).
Posted onInDeePMD-kitWord count in article: 2kReading time ≈7 mins.
On October 17, 2024, the research paper titled "Entropy in catalyst dynamics under confinement" by the AI4EC Lab/Professor Jun Cheng's research group from Xiamen University was published online in the international journal Chem. Sci. The first author of the paper is Qiyuan Fan(currently a teacher at the School of Chemistry and Chemical Engineering, Shanxi University). This work was completed under the guidance of Professor Jun Cheng and with the guidance and support of Academician Zhongqun Tian, Academician Xinhe Bao from the Dalian Institute of Chemical Physics, Chinese Academy of Sciences, Academician Weinan E from Peking University, and Professor Ye Wang from Xiamen University.
Posted onInGPUMD&NEPWord count in article: 1.6kReading time ≈6 mins.
GPUMD is an efficient domestic molecular dynamics simulation software developed and maintained by Professor Zheyong Fan from Bohai University. The software first released its public version 1.0 in 2017 [Computer Physics Communications 218, 10 (2017)] and has currently been iterated to version 3.9.4. GPUMD includes both commonly used empirical potentials and NEP (Neuroevolution Potential) machine learning potentials. Up to now, GPUMD has been used by thousands of users in many countries around the world and has attracted dozens of researchers to participate in its development. It is widely applied in fields such as heat and mass transfer, mechanical properties, structural phase transitions, irradiation damage, spectroscopy, and catalysis. Related achievements have been published in top academic journals such as Nature, Nature Communications, J. Am. Chem. Soc, ACS Nano, Phys. Rev. Lett, J. Mech. Phys. Solids, J. Chem. Theory Comput., Phys. Rev. B, and J. Chem. Phys.
In June 2024, GPUMD&NEP joined the DeepModeling community. As an innovative and highly efficient MD simulation and machine learning potential function tool, it further provides support for the Materials Genome Project and the AI4S community.
Introduction
In recent years, all-solid-state lithium-ion batteries have attracted much attention due to their high safety and high energy density. As a solid-state electrolyte material with high ionic conductivity and stability, Li7La3Zr2O12 (LLZO) is particularly remarkable. However, there is a significant difference between the theoretically predicted activation energy (about 1.2 eV) and the experimentally measured value (about 0.45 eV) for lithium-ion migration in the tetragonal phase LLZO. This contradiction limits the in-depth understanding and optimization of the material's performance.
Recently, Professor Yizhou Zhu's team from Westlake University successfully solved this problem by using GPUMD&NEP and achieved high-precision and large-scale simulations of lithium-ion migration in LLZO. The research accurately predicted key properties such as the temperature of the tetragonal-cubic phase transition, lattice parameters, ionic conductivity, activation energy for lithium-ion migration, and defect concentrations of lithium and oxygen in LLZO from the theoretical level, and these results are almost completely consistent with the experimentally measured values. Notably, this is also the first application of GPUMD&NEP in the field of solid-state electrolytes, demonstrating its strong potential in studying large-scale complex material systems.
GPUMD&NEP: A Perfect Combination of High Efficiency and High Precision
Figure 1. (a) Lithium sublattice in tetragonal phase and (b) cubic phase LLZO.
The unit cell of LLZO contains 192 atoms, and the LaO8 and ZrO6 polyhedra form a three-dimensional framework that supports the lithium-ion transport network. Its lithium sublattice shows significant differences between the tetragonal phase (t-LLZO) and the cubic phase (c-LLZO): in the tetragonal phase, lithium ions vibrate between ordered crystal sites with limited diffusion, while the disordered sublattice structure in the cubic phase significantly enhances the ion migration ability. There have been some previous molecular dynamics simulation studies on this system. However, classical molecular dynamics simulations based on the Buckingham potential lack sufficient precision, and expensive ab initio molecular dynamics simulations can only perform short-time and small-scale simulations (usually 1×1×1 unit cell). More importantly, previous studies have shown that there are significant differences between the simulation results of unit cells and supercells, and there are obvious deviations in the described activation energy for lithium-ion diffusion.
GPUMD&NEP perfectly solves this problem. As a machine learning force field that balances precision, efficiency, and cost, NEP accurately predicts this complex solid-state electrolyte model using only 2024 structures. The training set includes a total of 2024 structures collected through random perturbations, strains, and active learning strategies. It contains 1978 intrinsic LLZO structures and 46 structures with Li-O defects. The root mean square errors of NEP in predicting the energy, force, and stress of the training set are 0.66 meV/atom, 64.88 meV/Å, and 0.0767 GPa, respectively. In addition, with the support of GPUMD, researchers can break through the bottlenecks of size and simulation time, conduct high-precision long-time simulations at low cost, and accurately reproduce key experimental values such as the activation energy for lithium-ion migration, defect concentration, and ionic conductivity in LLZO, fully demonstrating the great potential of GPUMD&NEP in the field of solid-state electrolytes.
Figure 2. Comparison of (a) energy, (b) force, and (c) stress values predicted by NEP with DFT calculation results.
The following are the core findings and breakthroughs in the research:
Point 1: Accurately Describe the Tetragonal-Cubic Phase Transition
The tetragonal phase LLZO undergoes a phase transition at about 900 K to form a cubic phase with high conductivity (Figure 3). The calculated lattice parameters are highly consistent with the experimentally measured results (purple open circles). GPUMD&NEP accurately describes the phase transition behavior of LLZO, further verifying the reliability of this method.
Figure 3. Evolution of the calculated LLZO lattice parameters. Purple open circles are the experimental lattice parameters.
Point 2: Significant Influence of Lithium Nonstoichiometry on Ion Migration
The research found that the introduction of a small amount of lithium defects significantly reduces the activation energy for ion migration. In particular, after introducing about 5.2‰ oxygen defects, a small number of lithium vacancies are generated in the system to maintain charge balance. This combination of lithium and oxygen defects reduces the activation energy from the theoretical value of 1.227 eV to 0.425 eV, which is almost completely consistent with the experimentally measured value of 0.41 - 0.45 eV (Figure 4). At the same time, the ionic conductivity is increased by about 10 orders of magnitude, which is also highly consistent with the experimental results. Surprisingly, the concentration of oxygen defects in the simulation is also highly consistent with the oxygen defect concentration of about 5‰ in single-crystal LLZO reported by Kubicek et al.
Figure 4. Arrhenius plot of lithium-ion diffusion in LLZO under different lithium nonstoichiometries. Gray open circles are the experimental results.
Point 3: The Main Driving Force for Increasing Ionic Conductivity Is Lithium Defects Rather Than Oxygen Defects
The main driving force for increasing the ionic conductivity of tetragonal LLZO is lithium defects rather than oxygen defects. Simulation results show that introducing only oxygen defects hardly changes the migration characteristics of lithium ions, and the activation energy remains above 1.2 eV with extremely low ionic conductivity. In contrast, after introducing lithium defects, regardless of the presence of oxygen defects, the activation energy of lithium ions is significantly reduced. This indicates that lithium defects play a key role in reducing the activation energy and increasing the ionic conductivity, while the main role of oxygen defects is to maintain the charge balance of the material.
Figure 5. Activation energy and ionic conductivity of lithium ions in tetragonal LLZO with different defect types.
Point 4: Influence of Lithium Defects on Phase Transition Behavior
Lithium nonstoichiometry not only has an important impact on ion migration but also significantly regulates the tetragonal-cubic phase transition behavior. The research found that when the lithium defect concentration reaches about 3.6% (Li6.75), the tetragonal-cubic phase transition temperature is significantly reduced from 900 K to about 750 K. Similarly, the driving force for this phase transition mainly comes from lithium defects rather than the contribution of oxygen defects. The results show that by precisely controlling the lithium nonstoichiometry, the cubic phase with high conductivity can be stabilized at a lower temperature, providing new design ideas and strategies for optimizing the performance of LLZO electrolytes.
Figure 6. Evolution of the lattice parameters of intrinsic and nonstoichiometric LLZO.
Conclusions
This research is the first application of GPUMD&NEP in the field of solid-state electrolytes and successfully analyzes the impact of lithium nonstoichiometry on lithium-ion migration in LLZO. This breakthrough not only fills the long-term gap between theory and experiment but also demonstrates the broad application prospects of GPUMD&NEP in large-scale complex material systems.
The related results were published in the international well-known journal Chemistry of Materials under the title "Impact of Lithium Nonstoichiometry on Ionic Diffusion in Tetragonal Garnet-Type Li7La3Zr2O12 [1]". The first author is Dr. Yan Zihan, a doctoral student jointly cultivated by Zhejiang University and Westlake University, and Professor Zhu Yizhou is the sole corresponding author. All the calculations in this work were completed at the Supercomputing Center of Westlake University. The author revealed that for a system of 12288 atoms, a single 2080Ti can even achieve a calculation speed of about 211 timesteps/s, and a long-time simulation of 2 ns only took less than 3 hours.
Paper link: https://pubs.acs.org/doi/10.1021/acs.chemmater.4c02454
References
[1] Yan, Zihan, and Yizhou Zhu. "Impact of Lithium Nonstoichiometry on Ionic Diffusion in Tetragonal Garnet-Type Li7La3Zr2O12." Chemistry of Materials (2024).: https://pubs.acs.org/doi/10.1021/acs.chemmater.4c02454
Posted onInUni-MolWord count in article: 1.8kReading time ≈6 mins.
With the growing market demand for efficient and safe rechargeable batteries that can operate under extreme temperature conditions, the rapid and accurate evaluation of key properties of electrolyte molecules has become particularly important. A recent paper titled "A Knowledge–Data Dual-Driven Framework for Predicting the Molecular Properties of Rechargeable Battery Electrolytes," published in Angewandte Chemie International Edition, details an innovative approach known as the "Knowledge–Data Dual-Driven Framework" (KPI) specifically designed to predict the molecular properties of battery electrolytes, including melting point (MP), boiling point (BP), and flash point (FP). The research team skillfully combined deep learning techniques with domain-specific chemical knowledge, supported by large-scale datasets, significantly enhancing the accuracy and efficiency of predictions. In this framework, the Uni-Mol model plays a central role, demonstrating great potential in predicting the properties of electrolyte molecules and providing strong support for the development of next-generation high-performance batteries.
Xiang Chen, an associate research fellow in the Department of Chemical Engineering at Tsinghua University, is the corresponding author of the paper. Yuchen Gao, a 2022 direct-entry PhD student in the Department of Chemical Engineering, is the first author. Co-authors include Yuhang Yuan, an undergraduate from the Tsinghua Academy of Wisdom; Suozhi Huang, an undergraduate from the Institute for Interdisciplinary Information Sciences; Nan Yao, a 2020 direct-entry PhD student; Legeng Yu, a 2021 direct-entry PhD student; Yaopeng Chen, a 2023 direct-entry PhD student; and Qiang Zhang, a professor in the Department of Chemical Engineering. The research was supported by funding from the National Natural Science Foundation of China, the National Key R&D Program of China, and the Beijing Natural Science Foundation.
Posted onInUni-MolWord count in article: 1.4kReading time ≈5 mins.
On August 19, 2024, Linlin Hou, Hongxin Xiang, and Xiangxiang Zeng from Hunan University, in collaboration with Li Zeng from the Shanghai Institute of Materia Medica, published a research article titled "Attribute-guided Prototype Network for Few-shot Molecular Property Prediction" in Briefings in Bioinformatics. This study introduced an Attribute-guided Prototype Network (APN), which innovatively combines high-level molecular fingerprints with deep learning algorithms, significantly improving the accuracy of molecular property prediction in limited-sample scenarios. This breakthrough opens a new direction for few-shot learning in drug development.
Posted onInDeePMD-kitWord count in article: 747Reading time ≈3 mins.
The third highlight of DeePMD-kit v3 is its model plugin mechanism. This article introduces the feature from three perspectives: background and principles, development tutorial, and usage tutorial.
Posted onInDeePMD-kitWord count in article: 761Reading time ≈3 mins.
The second highlight of DeePMD-kit v3 is the DPA model and training strategies such as multi-task training and fine-tuning. This article introduces these features from two aspects: background and principles and usage tutorials.
Posted onInDeePMD-kitWord count in article: 1.2kReading time ≈4 mins.
One of the highlights of DeePMD-kit v3 is its multi-backend framework. This article introduces it from three aspects: background and principles, usage tutorial, and development tutorial.