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Mixed atomistic and continuum methods offer the possibility of carrying out simulations of material properties at both larger length scales and longer times than direct atomistic calculations. The quasi-continuum method links atomistic and…

Materials Science · Physics 2007-05-23 V. B. Shenoy , R. Miller , E. B. Tadmor , D. Rodney , R. Phillips , M. Ortiz

Quantum robots and their interactions with environments of quantum systems are described and their study justified. A quantum robot is a mobile quantum system that includes a quantum computer and needed ancillary systems on board. Quantum…

Quantum Physics · Physics 2008-12-30 Paul Benioff

The advent of simulation engines has revolutionized learning and operational efficiency for robots, offering cost-effective and swift pipelines. However, the lack of a universal simulation platform tailored for chemical scenarios impedes…

Robotics · Computer Science 2024-06-13 Shoujie Li , Yan Huang , Changqing Guo , Tong Wu , Jiawei Zhang , Linrui Zhang , Wenbo Ding

The dynamics of many macromolecular machines is characterized by chemically-mediated structural changes that achieve large scale functional deployment through local rearrangements of constitutive protein sub-units. Motivated by recent high…

Soft Condensed Matter · Physics 2024-07-16 Noah Toyonaga , L Mahadevan

Synthetic nanomotors powered by chemical reactions have been designed to act as vehicles for active cargo transport, drug delivery as well as a variety of other uses. Collections of such motors, acting in consort, can self-assemble to form…

Soft Condensed Matter · Physics 2024-03-05 Narender Khatri , Raymond Kapral

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 the framework, a…

Machine Learning · Computer Science 2021-08-24 Naveed Ahmed Azam , Jianshen Zhu , Kazuya Haraguchi , Liang Zhao , Hiroshi Nagamochi , Tatsuya Akutsu

One approach to studying the system-wide organization of biochemistry is to use statistical graph theory. Even in such a heavily simplified method, which disregards most of the dynamic aspects of biochemistry, one is faced with fundamental…

Molecular Networks · Quantitative Biology 2010-08-17 Petter Holme , Mikael Huss

Quantum computer provides new opportunities for quantum chemistry. In this article, we present a versatile, extensible, and efficient software package, named Q$^2$Chemistry, for developing quantum algorithms and quantum inspired classical…

Quantum Physics · Physics 2023-01-18 Yi Fan , Jie Liu , Xiongzhi Zeng , Zhiqian Xu , Honghui Shang , Zhenyu Li , Jinlong Yang

An alternative methodology to evaluate two-electron-repulsion integrals based on numerical approximation is proposed. Computational chemistry has branched into two major fields with methodologies based on quantum mechanics and classical…

Chemical Physics · Physics 2016-09-22 Pedro E. M. Lopes

Conical intersections play central roles in photoinduced reactions. However, comprehensive conical-intersection datasets that could advance our understanding of excited-state reaction processes remain scarce. To address this gap, we…

Chemical Physics · Physics 2026-05-15 Jiahui Zhang , Yifei Zhu , Chuqiao Feng , Yingjin Ma , Chao Xu , Zhenggang Lan

Chemical kinetic models are an essential component in the development and optimisation of combustion devices through their coupling to multi-dimensional simulations such as computational fluid dynamics (CFD). Low-dimensional kinetic models…

Chemical Physics · Physics 2023-06-21 Mark Kelly , Mark Fortune , Gilles Bourque , Stephen Dooley

Similarly to gear systems in vehicles, most chemical reaction networks (CRNs) involved in energy transduction have at their disposal multiple transduction pathways, each characterized by distinct efficiencies. We conceptualize these…

Molecular Networks · Quantitative Biology 2025-07-24 Massimo Bilancioni , Massimiliano Esposito

The design and synthesis of complex and large mimicked biochemical networks de novo is an unsolved problem in synthetic biology. To address this limitation without resorting to ad hoc computations and experiments, a predictive mathematical…

Biological Physics · Physics 2015-01-21 Eisuke Chikayama , R. Craig Everroad

A chemo-mechanical model for a finite-strain elasto-viscoplastic material containing multiple chemical components is formulated and an efficient numerical implementation is developed to solve the resulting transport relations. The numerical…

Computational Physics · Physics 2020-04-22 Pratheek Shanthraj , Chuanlai Liu , Amirhassan Akbarian , Bob Svendsen , Dierk Raabe

Growing evidence has indicated that the global composition distribution plays an indisputable role in interpreting observational data. 3D general circulation models (GCMs) with a reliable treatment of chemistry and clouds are particularly…

Earth and Planetary Astrophysics · Physics 2022-08-10 Shang-Min Tsai , Elspeth K. H. Lee , Raymond Pierrehumbert

We use the benefits and components of classical computers every day. However, there are many types of problems which, as they grow in size, their computational complexity grows larger than classical computers will ever be able to solve.…

Coarse graining (CG) enables the investigation of molecular properties for larger systems and at longer timescales than the ones attainable at the atomistic resolution. Machine learning techniques have been recently proposed to learn CG…

Computational Physics · Physics 2022-09-28 Eleonora Ricci , George Giannakopoulos , Vangelis Karkaletsis , Doros N. Theodorou , Niki Vergadou

Reaction-diffusion processes play an important role in a variety of physical, chemical, and biological systems. Conventionally, the kinetics of these processes are described by the law of mass action. However, there are various cases where…

Chemical Physics · Physics 2026-05-06 Roman V. Li , Oleg A. Igoshin , Evgeny B. Krissinel , Pavel A. Frantsuzov

We derive the nonequilibrium conductance matrix for open stationary Chemical Reaction Networks (CRNs) described by a deterministic mass action kinetic equation. As an illustration, we determine the nonequilibrium conductance matrix of a CRN…

Statistical Mechanics · Physics 2025-06-27 Paul Raux , Christophe Goupil , Gatien Verley

Chemists need to perform many laborious and time-consuming experiments in the lab to discover and understand the properties of new materials. To support and accelerate this process, we propose a robot framework for manipulation that…