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This study explores the emergence of life through a simulation model approach. The model "Multi-set chemical lattice model" is a model that allows virtual molecules of multiple types to be placed in each lattice cell on a two-dimensional…

Other Quantitative Biology · Quantitative Biology 2023-04-12 Takeshi Ishida

A recently introduced general-purpose heuristic for finding high-quality solutions for many hard optimization problems is reviewed. The method is inspired by recent progress in understanding far-from-equilibrium phenomena in terms of {\em…

Neural and Evolutionary Computing · Computer Science 2007-05-23 Stefan Boettcher , Allon G. Percus

Standard chemical evolution models based on long-term infall are affected by a number of problems, evidenced by the analysis of the most recent data. Among these: (1) models rely on the local metallicity distribution, assuming its shape is…

Astrophysics of Galaxies · Physics 2014-01-10 Misha Haywood

Algorithmic strategies for the spatio-temporal simulation of multi-cellular systems are crucial to generate synthetic datasets for bioinformatics tools benchmarking, as well as to investigate experimental hypotheses on real-world systems in…

Populations and Evolution · Quantitative Biology 2021-10-14 Fabrizio Angaroni , Marco Antoniotti , Alex Graudenzi

The idea that there are any large-scale trends in the evolution of biological organisms is highly controversial. It is commonly believed, for example, that there is a large-scale trend in evolution towards increasing complexity, but…

Neural and Evolutionary Computing · Computer Science 2021-06-08 Peter D. Turney

Molecular discovery within the vast chemical space remains a significant challenge due to the immense number of possible molecules and limited scalability of conventional screening methods. To approach chemical space exploration more…

Chemical Physics · Physics 2025-07-16 Luis J. Walter , Tristan Bereau

Variational methods offer a highly promising route to exploiting quantum computers for chemistry tasks. Here we employ methods described in a sister paper to the present report, entitled ab initio machine synthesis of quantum circuits, in…

Quantum Physics · Physics 2023-08-09 Cica Gustiani , Richard Meister , Simon C. Benjamin

Chemical accuracy serves as an important metric for assessing the effectiveness of the numerical method in Kohn--Sham density functional theory. It is found that to achieve chemical accuracy, not only the Kohn--Sham wavefunctions but also…

Computational Physics · Physics 2023-10-25 Yang Kuang , Yedan Shen , Guanghui Hu

Astrochemical simulations are a powerful tool for revealing chemical evolution in the interstellar medium. Astrochemical calculations require efficient processing of large matrices for the chemical networks. The large chemical reaction…

Instrumentation and Methods for Astrophysics · Physics 2023-12-11 Kazutaka Motoyama , Ruben Krasnopolsky , Hsien Shang , Kento Aida , Eisaku Sakane

We report first results of an implementation of a chemical model in a cosmological code, based on the Smoothed Particle Hydrodynamics (SPH) technique. We show that chemical SPH simulations are a promising tool to provide clues for the…

Astrophysics · Physics 2007-05-23 S. A. Cora , M. B. Mosconi , P. B. Tissera , D. G. Lambas

With the advent of large spectroscopic surveys the amount of high quality chemo-dynamical data in the Milky Way (MW) increased tremendously. Accurately and correctly capturing and explaining the detailed features in the high-quality…

Optimization of chemical systems and processes have been enhanced and enabled by the guidance of algorithms and analytical approaches. While many methods will systematically investigate how underlying variables govern a given outcome, there…

Optimization and Control · Mathematics 2024-03-25 Armen Beck , Jonathan Fine , Gaurav Chopra

To understand the chirality selection in the biological organic system, a simple lattice model of chemical reaction with molecular diffusion is proposed and studied by Monte Carlo simulations. In addition to a simple stochastic process of…

Chemical Physics · Physics 2007-07-20 Yukio Saito , Hiroyuki Hyuga

Many areas of chemistry are devoted to the challenge of understanding, predicting, and controlling the behavior of strongly localized electrons. Examples include molecular magnetism and luminescence, color centers in crystals,…

Chemical Physics · Physics 2022-09-08 R. Matthias Geilhufe , Jeffrey D. Rinehart

Empirical evidence suggests that hashing is an effective strategy for dimensionality reduction and practical nonparametric estimation. In this paper we provide exponential tail bounds for feature hashing and show that the interaction…

Artificial Intelligence · Computer Science 2010-02-27 Kilian Weinberger , Anirban Dasgupta , Josh Attenberg , John Langford , Alex Smola

The determination of chemical abundances in star-forming galaxies and the study of their evolution on cosmological timescales are powerful tools for understanding galaxy formation and evolution. This contribution presents the latest results…

Astrophysics · Physics 2007-05-23 T. Contini , M. -A. Treyer , M. Mouhcine , M. Sullivan , R. S. Ellis

We present first results of an implementation of chemical evolution in a cosmological hydrodynamical code, focusing the analysis on the effects of cooling baryons according to their metallicity. We found that simulations with primordial…

Astrophysics · Physics 2007-05-23 Patricia B. Tissera , Cecilia Scannapieco

The complexity of the standard hierarchy of quantum chemistry methods is not invariant to the choice of representation. This work explores how the scaling of common quantum chemistry methods can be reduced using real-space, momentum-space,…

Chemical Physics · Physics 2018-02-14 Narbe Mardirossian , James D. McClain , Garnet Kin-Lic Chan

Datasets in the fields of climate and environment are often very large and irregularly spaced. To model such datasets, the widely used Gaussian process models in spatial statis- tics face tremendous challenges due to the prohibitive…

Methodology · Statistics 2016-05-31 Huang Huang , Ying Sun

We have developed an algorithm coupling mesoscopic simulations on different levels in a hierarchy of Cartesian meshes. Based on the multiscale nature of the chemical reactions, some molecules in the system will live on a fine-grained mesh,…

Numerical Analysis · Mathematics 2020-02-19 Stefan Hellander , Andreas Hellander