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Statistical learning algorithms are finding more and more applications in science and technology. Atomic-scale modeling is no exception, with machine learning becoming commonplace as a tool to predict energy, forces and properties of…

Chemical Physics · Physics 2020-12-09 Félix Musil , Michele Ceriotti

We propose a computationally lean, two-stage approach that reliably predicts self-assembly behavior of complex charged molecules on a metallic surfaces under electrochemical conditions. Stage one uses ab initio simulations to provide…

Computational Physics · Physics 2020-07-15 Benedikt Hartl , Shubham Sharma , Oliver Brügner , Stijn F. L. Mertens , Michael Walter , Gerhard Kahl

In real-life applications, most optimization problems are variants of well-known combinatorial optimization problems, including additional constraints to fit with a particular use case. Usually, efficient algorithms to handle a restricted…

Discrete Mathematics · Computer Science 2025-01-24 Sébastien Martin , Pierre Bauguion , Youcef Magnouche , Jérémie Leguay

We propose a new geometrical model of matter, in which neutral atoms are modelled by compact, complex algebraic surfaces. Proton and neutron numbers are determined by a surface's Chern numbers. Equivalently, they are determined by…

High Energy Physics - Theory · Physics 2016-09-12 M. F. Atiyah , N. S. Manton

Networks have in recent years emerged as an invaluable tool for describing and quantifying complex systems in many branches of science. Recent studies suggest that networks often exhibit hierarchical organization, where vertices divide into…

Machine Learning · Statistics 2008-11-05 Aaron Clauset , Cristopher Moore , M. E. J. Newman

The description of complex configuration is a difficult issue. We present a powerful technique for cluster identification and characterization. The scheme is designed to treat with and analyze the experimental and/or simulation data from…

Statistical Mechanics · Physics 2013-08-29 Guangcai Zhang , Aiguo Xu , Guo Lu , Zeyao Mo

Atom tracing is essential for understanding the fate of labeled atoms in biochemical reaction networks, yet existing computational methods either simplify label correlations or suffer from combinatorial explosion. We introduce a…

Molecular Networks · Quantitative Biology 2025-12-12 Marcel Friedrichs , Daniel Merkle

Many combinatorial optimisation problems hide algebraic structures that, once exposed, shrink the search space and improve the chance of finding the global optimal solution. We present a general framework that (i) identifies algebraic…

Artificial Intelligence · Computer Science 2026-04-08 Min Sun , Federica Storti , Valentina Martino , Miguel Gonzalez-Andrades , Tony Kam-Thong

Materials discovery is a computationally intensive process that requires exploring vast chemical spaces to identify promising candidates with desirable properties. In this work, we propose using quantum-enhanced machine learning algorithms…

The combination of high throughput computation and machine learning has led to a new paradigm in materials design by allowing for the direct screening of vast portions of structural, chemical, and property space. The use of these powerful…

Materials Science · Physics 2018-11-12 Tian Xie , Jeffrey C. Grossman

The local arrangement of atoms is one of the most important predictors of mechanical and functional properties of materials. However, algorithms for identifying the geometrical arrangements of atoms in complex materials systems are lacking.…

Materials Science · Physics 2019-04-15 Arash Dehghan Banadaki , Jason J. Maldonis , Paul M. Voyles , Srikanth Patala

Quantum computing has shown great potential in various quantum chemical applications such as drug discovery, material design, and catalyst optimization. Although significant progress has been made in quantum simulation of simple molecules,…

Quantum Physics · Physics 2023-05-30 Changsu Cao , Jinzhao Sun , Xiao Yuan , Han-Shi Hu , Hung Q. Pham , Dingshun Lv

We introduce a novel and concise methodology to detect the parity of atomic and molecular orbitals based on photoelectron holography, which is more general than the existing schemes. It fully accounts for the Coulomb distortions of electron…

Hyperspectral neutron tomography is an effective method for analyzing crystalline material samples with complex compositions in a non-destructive manner. Since the counts in the hyperspectral neutron radiographs directly depend on the…

Ultrafast diffraction imaging is a powerful tool to retrieve the geometric structure of gas-phase molecules with combined picometre spatial and attosecond temporal resolution. However, structural retrieval becomes progressively difficult…

Chemical Physics · Physics 2021-10-13 Xinyao Liu , Kasra Amini , Aurelien Sanchez , Blanca Belsa , Tobias Steinle , Jens Biegert

To comprehend the multipartite organization of large-scale biological and social systems, we introduce a new information theoretic approach that reveals community structure in weighted and directed networks. The method decomposes a network…

Physics and Society · Physics 2008-02-13 M. Rosvall , C. T. Bergstrom

Atomic ensembles, comprising clouds of atoms addressed by laser fields, provide an attractive system for both the storage of quantum information, and the coherent conversion of quantum information between atomic and optical degrees of…

Quantum Physics · Physics 2008-04-08 S. D. Barrett , P. P. Rohde , T. M. Stace

Crystallography, the primary method for determining the three-dimensional (3D) atomic positions in crystals, has been fundamental to the development of many fields of science. However, the atomic positions obtained from crystallography…

The classical method of determining the atomic structure of complex molecules by analyzing diffraction patterns is currently undergoing drastic developments. Modern techniques for producing extremely bright and coherent X-ray lasers allow a…

Biomolecules · Quantitative Biology 2015-10-12 Tomas Ekeberg , Stefan Engblom , Jing Liu

We use the k-core decomposition to visualize large scale complex networks in two dimensions. This decomposition, based on a recursive pruning of the least connected vertices, allows to disentangle the hierarchical structure of networks by…

Networking and Internet Architecture · Computer Science 2016-08-16 José Ignacio Alvarez-Hamelin , Luca Dall'Asta , Alain Barrat , Alessandro Vespignani