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Analysis of chemical graphs is becoming a major research topic in computational molecular biology due to its potential applications to drug design. One of the major approaches in such a study is inverse quantitative structure…

Computational Engineering, Finance, and Science · Computer Science 2020-12-04 Tatsuya Akutsu , Hiroshi Nagamochi

Establishing quantitative correlations between various molecular properties and chemical structures is of great technological importance for environmental and medical aspects. These approaches are referred to as Quantitative…

Materials Science · Physics 2024-04-16 H. M. Nagesh

A novel framework has recently been proposed for designing the molecular structure of chemical compounds with a desired chemical property using both artificial neural networks and mixed integer linear programming. In this paper, we design a…

This study conducts a Quantitative Structure Property Relationship (QSPR) analysis to explore the correlation between the physical properties of drug molecules and their topological indices using machine learning techniques. While prior…

Biomolecules · Quantitative Biology 2025-05-14 M. J. Nadjafi Arani , S. Sorgun , M. Mirzargar

We have evaluated conformational and orientational averages of binary interaction integrals for pairs of chains constituting atomistic representations of short polymer molecules. By considering A-A, B-B and A-B pairs, we relate these…

Chemical Physics · Physics 2009-05-29 Amirhossein Ahmadi , Juan J. Freire

Analysis of chemical graphs is a major research topic in computational molecular biology due to its potential applications to drug design. One approach is inverse quantitative structure activity/property relationship (inverse QSAR/QSPR)…

Data Structures and Algorithms · Computer Science 2020-09-22 Naveed Ahmed Azam , Jianshen Zhu , Yanming Sun , Yu Shi , Aleksandar Shurbevski , Liang Zhao , Hiroshi Nagamochi , Tatsuya Akutsu

Accurate amine property prediction is essential for optimizing CO2 capture efficiency in post-combustion processes. Quantum machine learning (QML) can enhance predictive modeling by leveraging superposition, entanglement, and interference…

Quantum Physics · Physics 2025-06-24 Hyein Cho , Jeonghoon Kim , Hocheol Lim

Coherent control, a central concept in physics and chemistry, has sparked significant interest due to its ability to fine-tune interference effects in atoms and individual molecules for applications ranging from light-harvesting complexes…

Quantum Physics · Physics 2026-01-07 Juan M. Scarpetta , Omar Calderón-Losada , Morten Hjorth-Jensen , John H. Reina

Quantitative structure-property relationships (QSPRs) aid in understanding molecular properties as a function of molecular structure. When the correlation between structure and property weakens, a dataset is described as "rough," but this…

Quantitative Methods · Quantitative Biology 2023-05-16 David E. Graff , Edward O. Pyzer-Knapp , Kirk E. Jordan , Eugene I. Shakhnovich , Connor W. Coley

Recently, a novel two-phase framework named mol-infer for inference of chemical compounds with prescribed abstract structures and desired property values has been proposed. The framework mol-infer is primarily based on using mixed integer…

Machine Learning · Computer Science 2025-07-08 Jianshen Zhu , Naveed Ahmed Azam , Kazuya Haraguchi , Liang Zhao , Tatsuya Akutsu

Machine learning (ML) offers considerable promise for the design of new molecules and materials. In real-world applications, the design problem is often domain-specific, and suffers from insufficient data, particularly labeled data, for ML…

Chemical Physics · Physics 2025-02-04 Ming Han , Ge Sun , Juan J. de Pablo

Few-shot learning is a promising approach to molecular property prediction as supervised data is often very limited. However, many important molecular properties depend on complex molecular characteristics -- such as the various 3D…

Machine Learning · Computer Science 2023-10-10 Christopher Fifty , Joseph M. Paggi , Ehsan Amid , Jure Leskovec , Ron Dror

The miscibility in several polymer blend mixtures (polymethylmethacrylate/polystyrene, (1,4-cis) polyisoprene/polystyrene, and polymethylmethacrylate/polyoxyethylene) has been investigated using Molecular Dynamics simulations for atomistic…

Chemical Physics · Physics 2009-05-29 Amirhossein Ahmadi , Juan J. Freire

Machine learning based methods have shown potential for optimizing existing molecules with more desirable properties, a critical step towards accelerating new chemical discovery. Here we propose QMO, a generic query-based molecule…

Machine Learning · Computer Science 2022-04-21 Samuel Hoffman , Vijil Chenthamarakshan , Kahini Wadhawan , Pin-Yu Chen , Payel Das

We study and predict the interfacial tension, solubility parameters and Flory-Huggins parameters of binary mixtures as functions of pressure and temperature, using multiscale numerical simulation. A mesoscopic approach is proposed for…

Chemical Physics · Physics 2016-02-19 E. Mayoral , E. Nahmad-Achar

Recently a novel framework has been proposed for designing the molecular structure of chemical compounds using both artificial neural networks (ANNs) and mixed integer linear programming (MILP). In the framework, we first define a feature…

Machine Learning · Computer Science 2021-08-25 Jianshen Zhu , Naveed Ahmed Azam , Kazuya Haraguchi , Liang Zhao , Hiroshi Nagamochi , Tatsuya Akutsu

Polymers are a versatile class of materials with widespread industrial applications. Advanced computational tools could revolutionize their design, but their complex, multi-scale nature poses significant modeling challenges. Conventional…

Olfactory perception plays a critical role in both human and organismal interactions, yet understanding of its underlying mechanisms and influencing factors remain insufficient. Molecular structures influence odor perception through…

Machine Learning · Computer Science 2025-02-04 HongXin Xie , JianDe Sun , Yi Shao , Shuai Li , Sujuan Hou , YuLong Sun , Jian Wang

The study of biomolecular folding has been greatly advanced by single-molecule force spectroscopy (SMFS), which enables the observation of the dynamics of individual molecules. However, extracting quantitative models of fundamental…

Chemical Physics · Physics 2026-04-30 Lars Dingeldein , Aaron Lyons , Pilar Cossio , Michael Woodside , Roberto Covino

Quantum-selected configuration interaction (QSCI) is a novel quantum-classical hybrid algorithm for quantum chemistry calculations. This method identifies electron configurations having large weights for the target state using quantum…

Chemical Physics · Physics 2025-03-31 Soichi Shirai , Shih-Yen Tseng , Hokuto Iwakiri , Takahiro Horiba , Hirotoshi Hirai , Sho Koh
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