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The recently developed evolutionary algorithm USPEX proved to be a tool that enables accurate and reliable prediction of structures for a given chemical composition. Here we extend this method to predict the crystal structure of polymers by…

Materials Science · Physics 2019-01-03 Qiang Zhu , Vinit Sharma , Artem R Oganov , Rampi Ramprasad

In our recent works, we developed a probabilistic framework for structural analysis in undirected networks. The key idea of that framework is to sample a network by a symmetric bivariate distribution and then use that bivariate distribution…

Social and Information Networks · Computer Science 2015-10-19 Cheng-Shang Chang , Duan-Shin Lee , Li-Heng Liou , Sheng-Min Lu , Mu-Huan Wu

Generating irreducible site-occupancy configurations by taking advantage of crystal symmetry is a ubiquitous method for accelerating of disordered structure prediction, which plays an important role in condensed matter physics and material…

Computational Physics · Physics 2020-10-28 Ji-Chun Lian , Hong-Yu Wu , Wei-Qing Huang , Wangyu Hu , Gui-Fang Huang

Chalcogenides, which refer to chalcogen anions, have attracted considerable attention in multiple fields of applications, such as optoelectronics, thermoelectrics, transparent contacts, and thin film transistors. In comparison to oxide…

The diffraction technique is widely used in the determination of crystal structures and is one of the bases for the modern science and technology. All related structure determination methods are based on the assumption that perfect single…

Materials Science · Physics 2020-08-25 Yihan Shen , Yibin Jiang , Jianhua Lin , Cheng Wang , Junliang Sun

The rational design of molecules with desired properties is a long-standing challenge in chemistry. Generative neural networks have emerged as a powerful approach to sample novel molecules from a learned distribution. Here, we propose a…

It is essential to know the arrangement of the atoms in a material in order to compute and understand its properties. Searching for stable structures of materials using first-principles electronic structure methods, such as density…

Materials Science · Physics 2015-03-17 Chris J. Pickard , R. J. Needs

Ground state structures found in nature are in many cases of high symmetry. But structure prediction methods typically render only a small fraction of high symmetry structures. Especially for large crystalline unit cells there are many low…

Computational Physics · Physics 2022-09-13 Hannes Huber , Martin Sommer , Moritz Gubler , Stefan Goedecker

Defects dictate the properties of many functional materials. To understand the behaviour of defects and their impact on physical properties, it is necessary to identify the most stable defect geometries. However, global structure searching…

Materials Science · Physics 2024-06-12 Irea Mosquera-Lois , Seán R. Kavanagh , Alex M. Ganose , Aron Walsh

Efficient heuristics have predicted many functional materials such as high-temperature superconducting hydrides, while inorganic structural chemistry explains why and how the crystal structures are stabilized. Here we develop the paired…

Materials Science · Physics 2024-11-07 Ryotaro Koshoji , Taisuke Ozaki

Artificial intelligence (AI) in the form of deep learning bears promise for drug discovery and chemical biology, $\textit{e.g.}$, to predict protein structure and molecular bioactivity, plan organic synthesis, and design molecules…

Biomolecules · Quantitative Biology 2022-12-29 Rıza Özçelik , Derek van Tilborg , José Jiménez-Luna , Francesca Grisoni

Detecting structures at the particle scale within plastically deformed crystalline materials allows a better understanding of the occurring phenomena. While previous approaches mostly relied on applying hand-chosen criteria on different…

Materials Science · Physics 2024-05-15 Armand Barbot , Riccardo Gatti

Crystalline phase structure is essential for understanding the performance and properties of a material. Therefore, this study identified and quantified the crystalline phase structure of a sample based on the diffraction pattern observed…

Materials Science · Physics 2023-09-27 Ryo Murakami , Yoshitaka Matsushita , Kenji Nagata , Hayaru Shouno , Hideki Yoshikawa

For large libraries of small molecules, exhaustive combinatorial chemical screens become infeasible to perform when considering a range of disease models, assay conditions, and dose ranges. Deep learning models have achieved state of the…

Crystal structure prediction (CSP), which aims to predict the three-dimensional atomic arrangement of a crystal from its composition, is central to materials discovery and mechanistic understanding. However, given the composition in a unit…

Materials Science · Physics 2026-03-10 Shi Yin , Jinming Mu , Xudong Zhu , Linxin He

Data mining is a recognized predictive tool in a variety of areas ranging from bioinformatics and drug design to crystal structure prediction. In the present study, an electronic structure implementation has been combined with structural…

Materials Science · Physics 2008-08-18 C. Ortiz , O. Eriksson , M. Klintenberg

Structures of chemical compounds can be synthesized and categorized through mathematical means. Organic compounds are suitable targets because of their simple valences. Acyclic organic compounds made of hydrogen and second-row elements C,…

Combinatorics · Mathematics 2013-01-08 Chin-yah Yeh

We present an information-theoretic approach inspired by distributional clustering to assess the structural heterogeneity of particulate systems. Our method identifies communities of particles that share a similar local structure by…

Statistical Mechanics · Physics 2020-04-20 Joris Paret , Robert L. Jack , Daniele Coslovich

Global optimization of crystal compositions is a significant yet computationally intensive method to identify stable structures within chemical space. The specific physical properties linked to a three-dimensional atomic arrangement make…

De novo prediction of protein structures, the prediction of structures from amino-acid sequences which are not similar to those of hitherto resolved structures, has been one of the major challenges in molecular biophysics. In this paper, we…

Biomolecules · Quantitative Biology 2008-02-22 Takeshi N. Sasaki , Hikmet Cetin , Masaki Sasai