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In biological tasks, data is rarely plentiful as it is generated from hard-to-gather measurements. Therefore, pre-training foundation models on large quantities of available data and then transfer to low-data downstream tasks is a promising…

Large scale atomistic simulations with suitable interatomic potentials are widely employed by scientists or engineers of different areas. Quick generation of high-quality interatomic potentials is of urgent need under present circumstances,…

Materials Science · Physics 2016-11-23 Kun Wang , Wenjun Zhu , Shifang Xiao , Jun Chen , Wangyu Hu

In Part I of this two-part investigation we described a methodology for the development of robust, analytic, many-body atom-atom potentials for small organic molecules from first principles and demonstrated how the CamCASP program can be…

Chemical Physics · Physics 2016-06-02 Alston J. Misquitta , Anthony J. Stone

Pseudo-Labeling has emerged as a simple yet effective technique for semi-supervised object detection (SSOD). However, the inevitable noise problem in pseudo-labels significantly degrades the performance of SSOD methods. Recent advances…

Computer Vision and Pattern Recognition · Computer Science 2023-03-07 Yulin He , Wei Chen , Ke Liang , Yusong Tan , Zhengfa Liang , Yulan Guo

We present pseudo-potential coefficients for the first two rows of the periodic table. The pseudo potential is of a novel analytic form, that gives optimal efficiency in numerical calculations using plane waves as basis set. At most 7…

mtrl-th · Physics 2009-10-28 S. Goedecker , M. Teter , J. Hutter

Pseudopotentials, tight-binding models, and $k\cdot p$ theory have stood for many years as the standard techniques for computing electronic states in crystalline solids. Here we present the first new method in decades, which we call…

Materials Science · Physics 2016-01-20 Craig Pryor , Mats-Erik Pistol

Designing a qubit architecture is one of the most critical challenges in achieving scalable and fault-tolerant quantum computing as the performance of a quantum computer is heavily dependent on the coherence times, connectivity and low…

Finding efficient decoders for quantum error correcting codes adapted to realistic experimental noise in fault-tolerant devices represents a significant challenge. In this paper we introduce several decoding algorithms complemented by deep…

Quantum Physics · Physics 2018-08-01 Christopher Chamberland , Pooya Ronagh

We present a plane-wave ultrasoft pseudopotential implementation of first-principle molecular dynamics, which is well suited to model large molecular systems containing transition metal centers. We describe an efficient strategy for…

Materials Science · Physics 2007-05-23 P. Giannozzi , F. De Angelis , R. Car

Electronic structure calculations are mostly carried out with Coulomb potential singularity adapted basis sets like STO or contracted GTO. With other basis or for heavy elements the pseudopotentials may appear as a practical alternative.…

Chemical Physics · Physics 2022-11-14 Tommi Höynälänmaa , Tapio Rantala

The semiconductor industry faces a computational crisis in extreme ultraviolet (EUV) lithography optimization, where traditional methods consume billions of CPU hours while failing to achieve sub-nanometer precision. We present a…

Machine Learning · Computer Science 2025-11-18 Rubén Darío Guerrero

Interatomic potentials approximate the potential energy of atoms as a function of their coordinates. Their main application is the effective simulation of many-atom systems. Here, we review empirical interatomic potentials designed to…

Materials Science · Physics 2022-11-11 Martin H. Muser , Sergey V. Sukhomlinov , Lars Pastewka

Precision beta decay experiments serve as powerful probes of physics beyond the Standard Model, enabling stringent tests of fundamental symmetries of nature. In particular, these experiments primarily focus on precise determinations of the…

Nuclear Theory · Physics 2026-02-03 Grigor H. Sargsyan , Garrett B. King , Ayala Glick-Magid , Chien-Yeah Seng

Molecules can form myriad crystalline polymorphs, each with distinct properties affecting their performance across diverse applications, from pharmaceuticals to functional materials and more. Predicting the thermodynamically most stable…

The errors arising in ab initio density functional theory studies of semiconductor point defects using the supercell approximation are analyzed. It is demonstrated that a) the leading finite size errors are inverse linear and inverse cubic…

Other Condensed Matter · Physics 2009-11-11 C. W. M. Castleton , A. Hoglund , S. Mirbt

A well-known drawback of state-of-the-art machine-learning interatomic potentials is their poor ability to extrapolate beyond the training domain. For small-scale problems with tens to hundreds of atoms this can be solved by using active…

Computational Physics · Physics 2020-09-22 Max Hodapp , Alexander Shapeev

We describe and test an implicit solvent all-atom potential for simulations of protein folding and aggregation. The potential is developed through studies of structural and thermodynamic properties of 17 peptides with diverse secondary…

Biomolecules · Quantitative Biology 2009-04-09 Anders Irbäck , Simon Mitternacht , Sandipan Mohanty

Deep learning has achieved impressive results in nuclei segmentation, but the massive requirement for pixel-wise labels remains a significant challenge. To alleviate the annotation burden, existing methods generate pseudo masks for model…

Computer Vision and Pattern Recognition · Computer Science 2024-06-25 Ziyue Wang , Ye Zhang , Yifeng Wang , Linghan Cai , Yongbing Zhang

We introduce a scheme for molecular simulations, the Deep Potential Molecular Dynamics (DeePMD) method, based on a many-body potential and interatomic forces generated by a carefully crafted deep neural network trained with ab initio data.…

Computational Physics · Physics 2018-04-11 Linfeng Zhang , Jiequn Han , Han Wang , Roberto Car , Weinan E

Self-consistent computations of the potential profile in complex semiconductor heterostructures can be successfully applied for comprehensive simulation of the gain and the absorption spectra, for the analysis of the capture, escape,…

Other Condensed Matter · Physics 2009-11-10 Ivan Safonov , Aleksey Shulika , Igor Sukhoivanov , Volodimir Lysak