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We argue for a convergence of crystallography, materials science and biology, that will come about through asking materials questions about biology and biological questions about materials, illuminated by considerations of information. The…

Adaptation and Self-Organizing Systems · Physics 2012-07-18 Julyan H. E. Cartwright , Alan L. Mackay

Owing to the computational complexity of electronic structure algorithms running on classical digital computers, the range of molecular systems amenable to simulation remains tightly circumscribed even after many decades of work. Quantum…

Quantum Physics · Physics 2022-05-18 Alexis Ralli , Michael I. Williams , Peter V. Coveney

Quantum technologies are poised to move the foundational principles of quantum physics to the forefront of applications. This roadmap identifies some of the key challenges and provides insights on materials innovations underlying a range of…

We review and extend existing frameworks on modeling to develop a new framework that describes model-based reasoning in upper-division physics labs. Constructing and using models are core scientific practices that have gained significant…

Physics Education · Physics 2015-10-28 Benjamin M. Zwickl , Dehui Hu , Noah Finkelstein , H. J. Lewandowski

With the rapid advancement of computational techniques, Molecular Dynamics (MD) simulations have emerged as powerful tools in biomedical research, enabling in-depth investigations of biological systems at the atomic level. Among the diverse…

Biomolecules · Quantitative Biology 2024-09-05 Reza Bozorgpour

Applied ontology is a relatively new field which aims to apply theories and methods from diverse disciplines such as philosophy, cognitive science, linguistics and formal logics to perform or improve domain-specific tasks. To support the…

Artificial Intelligence · Computer Science 2012-10-05 Robert Hoehndorf , Michel Dumontier , Georgios V. Gkoutos

We apply scaling and the theory of the fundamental limits of the second-order molecular susceptibility to identify material classes with ultralarge nonlinear-optical response. Size effects are removed by normalizing all nonlinearities to…

Optics · Physics 2016-11-03 Javier Perez-Moreno , Shoresh Shafei , Mark G. Kuzyk

Transformers have become foundational for visual tasks such as object detection, semantic segmentation, and video understanding, but their quadratic complexity in attention mechanisms presents scalability challenges. To address these…

Computer Vision and Pattern Recognition · Computer Science 2025-02-12 Fady Ibrahim , Guangjun Liu , Guanghui Wang

In pervasive computing environments, various entities often have to cooperate and integrate seamlessly in a \emph{situation} which can, thus, be considered as an amalgamation of the context of several entities interacting and coordinating…

Computers and Society · Computer Science 2015-03-26 Preeti Bhargava , Shivsubramani Krishnamoorthy , Ashok Agrawala

The molecular large language models have garnered widespread attention due to their promising potential on molecular applications. However, current molecular large language models face significant limitations in understanding molecules due…

Biomolecules · Quantitative Biology 2025-10-23 Zaifei Yang , Hong Chang , Ruibing Hou , Shiguang Shan , Xilin Chen

Computational chemistry allows researchers to experiment in sillico: by running a computer simulations of a biological or chemical processes of interest. Molecular dynamics with molecular mechanics model of interactions simulates N-body…

Distributed, Parallel, and Cluster Computing · Computer Science 2014-03-03 Jana Pazúriková

Topological materials occupy a frontier in condensed-matter physics thanks to their remarkable electronic and quantum properties, yet their cross-scale design remains bottlenecked by inefficient discovery workflows. Here, we introduce…

Materials Science · Physics 2025-07-08 Baohua Zhang , Xin Li , Huangchao Xu , Zhong Jin , Quansheng Wu , Ce Li

The quest for realizing and manipulating ever smaller man-made movable structures and dynamical machines has spurred tremendous endeavors, led to important discoveries, and inspired researchers to venture to new grounds. Scientific feats…

In semantic technologies, the shared common understanding of the structure of information among artifacts (people or software agents) can be realized by building an ontology. To do this, it is imperative for an ontology builder to answer…

Artificial Intelligence · Computer Science 2015-09-21 Thabet Slimani

The design of structural & functional materials for specialized applications is being fueled by rapid advancements in materials synthesis, characterization, manufacturing, with sophisticated computational materials modeling frameworks that…

Molecular communication is a biologically-inspired method of communication with attractive properties for microscale and nanoscale devices. In molecular communication, messages are transmitted by releasing a pattern of molecules at a…

Information Theory · Computer Science 2008-12-09 Andrew W. Eckford

Our understanding of the physics of biological molecules, such as proteins and DNA, is limited because the approximations we usually apply to model inert materials are not in general applicable to soft, chemically inhomogeneous systems. The…

Quantum Physics · Physics 2010-07-13 Sarah Harris , Vivien M. Kendon

Molecular representation learning plays a crucial role in various downstream tasks, such as molecular property prediction and drug design. To accurately represent molecules, Graph Neural Networks (GNNs) and Graph Transformers (GTs) have…

Machine Learning · Computer Science 2025-02-07 Jingjing Hu , Dan Guo , Zhan Si , Deguang Liu , Yunfeng Diao , Jing Zhang , Jinxing Zhou , Meng Wang

Advances in machine learning have impacted myriad areas of materials science, ranging from the discovery of novel materials to the improvement of molecular simulations, with likely many more important developments to come. Given the rapid…

Materials Science · Physics 2020-06-26 Dane Morgan , Ryan Jacobs

While the uptake of data-driven approaches for materials science and chemistry is at an exciting, early stage, to realise the true potential of machine learning models for successful scientific discovery, they must have qualities beyond…

Materials Science · Physics 2022-06-28 Felipe Oviedo , Juan Lavista Ferres , Tonio Buonassisi , Keith Butler