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In recent years, artificial intelligence has played an important role on accelerating the whole process of drug discovery. Various of molecular representation schemes of different modals (e.g. textual sequence or graph) are developed. By…

机器学习 · 计算机科学 2022-11-28 Tianyu Wu , Yang Tang , Qiyu Sun , Luolin Xiong

The first step in the construction of a regression model or a data-driven analysis, aiming to predict or elucidate the relationship between the atomic scale structure of matter and its properties, involves transforming the Cartesian…

Accurate structural analysis is essential to gain physical knowledge and understanding of atomic-scale processes in materials from atomistic simulations. However, traditional analysis methods often reach their limits when applied to…

Automated computational analysis of the vast chemical space is critical for numerous fields of research such as drug discovery and material science. Representation learning techniques have recently been employed with the primary objective…

定量方法 · 定量生物学 2023-05-26 Atakan Yüksel , Erva Ulusoy , Atabey Ünlü , Tunca Doğan

With the recent advances in machine learning for quantum chemistry, it is now possible to predict the chemical properties of compounds and to generate novel molecules. Existing generative models mostly use a string- or graph-based…

生物大分子 · 定量生物学 2020-10-14 Vitali Nesterov , Mario Wieser , Volker Roth

Determining atomic structure from spectroscopic data is central to materials science but remains restricted to a limited set of techniques and material classes, largely due to the computational cost and complexity of structural refinement.…

材料科学 · 物理学 2026-02-25 Ian Slagle , Faisal Alamgir , Victor Fung

This study introduces a novel approach, combining substruct counting, $k$-mers, and Daylight-like fingerprints, to expand the representation of chemical structures in SMILES strings. The integrated method generates comprehensive molecular…

生物大分子 · 定量生物学 2024-04-01 Sarwan Ali , Prakash Chourasia , Murray Patterson

Atom probe tomography (APT) is ideally suited to characterize and understand the interplay of chemical segregation and microstructure in modern multicomponent materials. Yet, the quantitative analysis typically relies on human expertise to…

In the computational prediction of chemical compound properties, molecular descriptors and fingerprints encoded to low dimensional vectors are used. The selection of proper molecular descriptors and fingerprints is both important and…

机器学习 · 计算机科学 2020-10-23 Sangrak Lim , Yong Oh Lee

Atomistic simulations have become a powerful tool in materials research due to the extremely fine spatial and temporal resolution provided by such techniques. In order to understand the fundamental principles which govern material behavior…

材料科学 · 物理学 2014-08-26 Jason F. Panzarino , Timothy J. Rupert

Recent advances in scanning transmission electron and scanning probe microscopies have opened exciting opportunities in probing the materials structural parameters and various functional properties in real space with angstrom-level…

Data-driven machine learning methods have the potential to dramatically accelerate the rate of materials design over conventional human-guided approaches. These methods would help identify or, in the case of generative models, even create…

材料科学 · 物理学 2022-07-28 Victor Fung , Shuyi Jia , Jiaxin Zhang , Sirui Bi , Junqi Yin , P. Ganesh

First principles based exploration of chemical space deepens our understanding of chemistry, and might help with the design of new materials or experiments. Due to the computational cost of quantum chemistry methods and the immens number of…

化学物理 · 物理学 2020-08-18 Bing Huang , O. Anatole von Lilienfeld

Traditional molecular string representations, such as SMILES, often pose challenges for AI-driven molecular design due to their non-sequential depiction of molecular substructures. To address this issue, we introduce Sequential…

机器学习 · 计算机科学 2023-12-13 Emmanuel Noutahi , Cristian Gabellini , Michael Craig , Jonathan S. C Lim , Prudencio Tossou

Functional properties of nanomaterials strongly depend on their surface atomic structure, but they often become largely different from their bulk structure, exhibiting surface reconstructions and relaxations. However, most of the surface…

材料科学 · 物理学 2021-10-01 Juhyeok Lee , Chaehwa Jeong , Yongsoo Yang

Determining the structure and following the structural evolution of molecules undergoing chemical reactions is one of the key goals of ultrafast molecular physics and chemistry. Recently, Coulomb explosion imaging has emerged as a promising…

Entity recognition is a fundamental task in understanding document images. Traditional sequence labeling frameworks treat the entity types as class IDs and rely on extensive data and high-quality annotations to learn semantics which are…

计算与语言 · 计算机科学 2022-04-13 Zilong Wang , Jingbo Shang

There is increasing adoption of artificial intelligence in drug discovery. However, existing studies use machine learning to mainly utilize the chemical structures of molecules but ignore the vast textual knowledge available in chemistry.…

机器学习 · 计算机科学 2024-01-31 Shengchao Liu , Weili Nie , Chengpeng Wang , Jiarui Lu , Zhuoran Qiao , Ling Liu , Jian Tang , Chaowei Xiao , Anima Anandkumar

Successful scientific applications of large-scale molecular dynamics often rely on automated methods for identifying the local crystalline structure of condensed phases. Many existing methods for structural identification, such as Common…

材料科学 · 物理学 2016-05-24 Peter Mahler Larsen , Søren Schmidt , Jakob Schiøtz

Accurate segmentation of Optical Coherence Tomography (OCT) images is crucial for diagnosing and monitoring retinal diseases. However, the labor-intensive nature of pixel-level annotation limits the scalability of supervised learning for…

计算机视觉与模式识别 · 计算机科学 2025-12-30 Jiaqi Yang , Nitish Mehta , Xiaoling Hu , Chao Chen , Chia-Ling Tsai