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The integration of various types of genomic data into predictive models of biological networks is one of the main challenges currently faced by computational biology. Constraint-based models in particular play a key role in the attempt to…

Molecular Networks · Quantitative Biology 2012-06-25 Daniele De Martino , Matteo Figliuzzi , Andrea De Martino , Enzo Marinari

We demonstrate a machine learning-based approach which predicts the properties of crystal structures following relaxation based on the unrelaxed structure. Use of crystal graph singular values reduces the number of features required to…

Materials Science · Physics 2024-02-15 Ethan P. Shapera , Dejan-Krešimir Bučar , Rohit P. Prasankumar , Christoph Heil

In this paper, we introduce a novel parametric method for segmentation of three-dimensional images. We consider a piecewise constant version of the Mumford-Shah and the Chan-Vese functionals and perform a region-based segmentation of 3D…

Computer Vision and Pattern Recognition · Computer Science 2015-06-24 Heike Benninghoff , Harald Garcke

Surface diffusion on metal oxides is key in many areas of materials technology, yet it has been scarcely explored at the atomic scale. This work provides phenomenological insights from scanning tunneling microscopy on the link between…

Materials Science · Physics 2023-08-29 Giada Franceschi , Michael Schmid , Ulrike Diebold , Michele Riva

We present a genetic algorithm for the atomistic design and global optimisation of substitutionally disordered bulk materials and surfaces. Premature convergence which hamper conventional genetic algorithms due to problems with…

Materials Science · Physics 2008-09-10 Chris E. Mohn , Walter Kob

Open-pit mine scheduling is a complex real world optimization problem that involves uncertain economic values and dynamically changing resource capacities. Evolutionary algorithms are particularly effective in these scenarios, as they can…

Neural and Evolutionary Computing · Computer Science 2026-04-16 Ishara Hewa Pathiranage , Aneta Neumann

Poisson Surface Reconstruction is a widely-used algorithm for reconstructing a surface from an oriented point cloud. To facilitate applications where only partial surface information is available, or scanning is performed sequentially, a…

Graphics · Computer Science 2025-06-06 Sidhanth Holalkere , David S. Bindel , Silvia Sellán , Alexander Terenin

Progressive deformation of upper mantle rocks via dislocation creep causes their constituent crystals to take on a non-random orientation distribution (crystallographic preferred orientation or CPO) whose observable signatures include…

In this article, a new method for segmentation and restoration of images on two-dimensional surfaces is given. Active contour models for image segmentation are extended to images on surfaces. The evolving curves on the surfaces are…

Computer Vision and Pattern Recognition · Computer Science 2015-05-04 Heike Benninghoff , Harald Garcke

Colloidal self-assembly -- the spontaneous organization of colloids into ordered structures -- has been considered key to produce next-generation materials. However, the present-day staggering variety of colloidal building blocks and the…

Soft Condensed Matter · Physics 2021-06-29 Gabriele Maria Coli , Emanuele Boattini , Laura Filion , Marjolein Dijkstra

Understanding and predicting microstructure evolution is fundamental to materials science, as it governs the resulting properties and performance of materials. Traditional simulation methods, such as phase-field models, offer high-fidelity…

Machine Learning · Computer Science 2026-02-24 Michael Trimboli , Mohammed Alsubaie , Sirani M. Perera , Ke-Gang Wang , Xianqi Li

Understanding and controlling the atomic structure of polar oxide surfaces is essential for unraveling surface reactivilty and designing advanced catalytic materials. Among these, the polar CeO2(100) surface is a prototypical and…

Defects such as grain boundaries (GBs) are almost inevitable during the synthesis process of 2D materials. To take advantage of the fascinating properties of 2D materials, understanding the nature and impact of various GB structures on the…

As the number of theoretically predicted materials continues to grow, it becomes increasingly important to assess not only their thermodynamic stability but also their kinetic viability under realistic synthesis conditions. In this study,…

Materials Science · Physics 2026-04-17 Max C. Gallant , David Mrdjenovich , Kristin A. Persson

Surface reconstruction is a fundamental problem in 3D graphics. In this paper, we propose a learning-based approach for implicit surface reconstruction from raw point clouds without normals. Our method is inspired by Gauss Lemma in…

Computer Vision and Pattern Recognition · Computer Science 2022-02-22 Dong Xiao , Siyou Lin , Zuoqiang Shi , Bin Wang

Over the past decade, evolutionary algorithms, data mining, and other methods showed great success in solving the main problem of theoretical crystallography: finding the stable structure for a given chemical composition. Here we develop a…

Materials Science · Physics 2020-05-15 Zahed Allahyari , Artem R. Oganov

We studied the dynamics of the reconstructed Si (111) surface using a total-energy-vibrational-spectrum approach based on a non-orthogonal tight-binding Hamiltonian. We first established the size of the supercell sufficient to yield a…

Condensed Matter · Physics 2007-05-23 Lei Liu , C. S. Jayanthi , Shi-Yu Wu

In this work we employ data-driven homogenization approaches to predict the particular mechanical evolution of polycrystalline aggregates with tens of individual crystals. In these oligocrystals the differences in stress response due to…

Mesoscale and Nanoscale Physics · Physics 2019-03-27 Ari L. Frankel , Reese E. Jones , Coleman Alleman , Jeremy A. Templeton

Score-based generative models (SGMs) have recently shown promising results for image reconstruction on simulated positron emission tomography (PET) datasets. In this work we have developed and implemented practical methodology for 3D image…

State-of-the-art learned reconstruction methods often rely on black-box modules that, despite their strong performance, raise questions about their interpretability and robustness. Here, we build on a recently proposed image reconstruction…

Image and Video Processing · Electrical Eng. & Systems 2026-05-19 Joshua Schulz , David Schote , Christoph Kolbitsch , Kostas Papafitsoros , Andreas Kofler
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