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Simulating large proteins using traditional molecular dynamics (MD) is computationally demanding. To address this challenge, we propose a novel tree-structured coarse-grained model that efficiently captures protein dynamics. By leveraging a…

Chemical Physics · Physics 2024-12-11 Jinzhen Zhu

In this study, we explore the potential of machine learning for modeling molecular electronic spectral intensities as a continuous function in a given wavelength range. Since presently available chemical space datasets provide excitation…

Chemical Physics · Physics 2022-08-02 Prakriti Kayastha , Sabyasachi Chakraborty , Raghunathan Ramakrishnan

As a hybrid quantum-classical algorithm, the variational quantum eigensolver is widely applied in quantum chemistry simulations, especially in computing the electronic structure of complex molecular systems. However, on existing noisy…

Quantum Physics · Physics 2025-01-28 Wanqi Sun , Jungang Xu , Chenghua Duan

The concept of metastability has caused a lot of interest in recent years. The spectral decomposition of the generator matrix of a stochastic network exposes all of the transition processes in the system. The assumption of the existence of…

Spectral Theory · Mathematics 2014-03-24 Maria K. Cameron

Determining the chemical structure for a single molecule on surface from spectroscopic data represents a challenging high-dimensional inverse problem. Tip-enhanced Raman spectroscopy (TERS) enables chemically specific imaging of single…

Chemical Physics · Physics 2026-03-24 Jie Cui , Yao Zhang , Yang Zhang , Yi Luo , Zhen-Chao Dong

Vibrational levels of the electronic ground states in dye molecules have not been previously explored at high resolution in solid matrices. We present new spectroscopic measurements on single polycyclic aromatic molecules of…

Electronic-structure theory is a strong pillar of materials science. Many different computer codes that employ different approaches are used by the community to solve various scientific problems. Still, the precision of different packages…

We present in detail and validate an effective Monte Carlo approach for the calculation of the nuclear vibrational densities via integration of molecular eigenfunctions that we have preliminary employed to calculate the densities of the…

Chemical Physics · Physics 2020-12-08 Chiara Aieta , Gianluca Bertaina , Marco Micciarelli , Michele Ceotto

We introduce a new method, called CNNAS (convolutional neural networks for atomistic systems), for calculating the total energy of atomic systems which rivals the computational cost of empirical potentials while maintaining the accuracy of…

Materials Science · Physics 2018-03-21 Kevin Ryczko , Kyle Mills , Iryna Luchak , Christa Homenick , Isaac Tamblyn

This study reports grain boundary (GB) energy calculations for 46 symmetric-tilt GBs in alpha-iron using molecular mechanics based on an artificial neural network (ANN) potential and compares the results with calculations based on the…

We present an efficient implementation of the Density Matrix Renormalization Group (DMRG) algorithm that includes an optimal ordering of the proton and neutron orbitals and an efficient expansion of the active space utilizing various…

Nuclear Theory · Physics 2015-11-18 Ö. Legeza , L. Veis , A. Poves , J. Dukelsky

Within the domain of medical image analysis, three distinct methodologies have demonstrated commendable accuracy: Neural Networks, Decision Trees, and Ensemble-Based Learning Algorithms, particularly in the specialized context of genstro…

Computer Vision and Pattern Recognition · Computer Science 2025-10-14 Zeshan Khan

We describe a new algorithm to calculate the vibrational nuclear level density of an atomic nucleus. Fictitious perturbation operators that probe the response of the system are generated by drawing their matrix elements from some…

Nuclear Theory · Physics 2024-09-13 Antonio Bjelčić , Nicolas Schunck

Accurately predicting the elastic properties of crystalline solids is vital for computational materials science. However, traditional atomistic scale ab initio approaches are computationally intensive, especially for studying complex…

Disordered Systems and Neural Networks · Physics 2023-11-13 Teerachote Pakornchote , Annop Ektarawong , Thiparat Chotibut

Tensor networks, such as matrix product states (MPS) and tree tensor network states (TTNS), are powerful ans\"atze for simulating quantum dynamics. While both ans\"atze are theoretically exact in the limit of large bond dimensions, [J.…

Chemical Physics · Physics 2025-12-15 Weitang Li , Jiajun Ren , Jun Yan

The calculation of the anharmonic modes of small to medium sized molecules for assigning experimentally measured frequencies to the corresponding type of molecular motions is computationally challenging at sufficiently high levels of…

Chemical Physics · Physics 2021-03-15 Silvan Käser , Eric Boittier , Meenu Upadhyay , Markus Meuwly

We present an efficient algorithm for calculating spectral properties of large sparse Hamiltonian matrices such as densities of states and spectral functions. The combination of Chebyshev recursion and maximum entropy achieves high energy…

Condensed Matter · Physics 2009-10-30 R. N. Silver , H. Roder

We present a simple and efficient method to incorporate anharmonic effects in the vibrational \textcolor{black}{analyses} of molecules within density functional theory (DFT) calculations. This approach is closely related to the traditional…

A general theory of electronic excitations in aggregates of molecules coupled to intramolecular vibrations and the harmonic environment is developed for simulation of the third-order nonlinear spectroscopy signals. The model is applied in…

Chemical Physics · Physics 2014-01-17 Vytautas Butkus , Leonas Valkunas , Darius Abramavicius

Quantum computation of vibrational properties of molecules is a promising platform to obtain computational advantages for computational chemistry. However, fault-tolerant quantum computations of vibrational properties remain a relatively…