In this work we implement a machine learning method to predict the thermodynamic state of a liquid using only its microscopic structure provided by the radial distribution function (RDF). The main goal is to determine the equation of state of the system. The goal is achieved by predicting the density, temperature or both at the same time using only the RDF. We implement and train a machine learning feed forward artificial neural network (ANN) to address the different cases of interest where single or simultaneous predictions are done. Due to its versatility, in this study the Lennard-Jones (LJ) fluid is used as the reference system. The ANN is trained in a wide range of densities and temperatures, covering the liquid-vapour coexistence, liquid phase and supercritical states. We show that the overall percentage relative error of most of the predictions in different cases of study is around 3%. As a practical case of study we use the ANN predictions to determine the pressure equation of state for different isotherms and we found a very good agreement with respect to the exact results. Our ANN implementation is a versatile and useful tool to predict thermodynamic state variables when some information is unknown and, consequently, to enhance the thermodynamic description of liquids.
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http://dx.doi.org/10.1039/d0sm02127j | DOI Listing |
J Phys Chem A
January 2025
School of Applied Science and Humanities, Haldia Institute of Technology, ICARE Complex, Haldia 721657, India.
This study explores the reactivity of a new intermolecular P/B frustrated Lewis pair in the context of dinitrogen activation through a push-pull mechanism. The ab initio molecular dynamics model known as atom-centered density matrix propagation plays a pivotal role in elucidating the weakly associated encounter complex. In-depth analysis, mainly through intrinsic reaction coordinate calculations, supports a single-step mechanism.
View Article and Find Full Text PDFSci Rep
January 2025
Department of Horticulture, Washington State University Northwestern Washington Research and Extension Center, Mount Vernon, WA, 98221, USA.
Biostimulants are an emerging and innovative class of products that may mitigate the adverse effects of extreme heat, but research on their efficacy in fruit crops is limited. This study addressed this knowledge gap by evaluating the performance of three biostimulants, FRUIT ARMOR™, Optysil®, and KelpXpress™ [active ingredients glycine betaine, silicon, and kelp (Ascophyllum nodosum) extract, respectively] applied to three raspberry genotypes exposed to high temperatures (T ≥ 35 °C/day) inside a glasshouse. 'Meeker' consistently maintained high chlorophyll fluorescence (F/F) and photosynthesis under control and biostimulant treatments.
View Article and Find Full Text PDFNat Commun
January 2025
Center for Bioinformatics and Quantitative Biology, Richard and Loan Hill Department of Biomedical Engineering, The University of Illinois Chicago, 851 South Morgan Street, Chicago, IL, 60607, USA.
The bottleneck in enhanced sampling lies in finding collective variables that effectively accelerate protein conformational changes; true reaction coordinates that accurately predict the committor are the well-recognized optimal choice. However, identifying them requires unbiased natural reactive trajectories, which, paradoxically, require effective enhanced sampling. Using the generalized work functional method, we uncover that true reaction coordinates control both conformational changes and energy relaxation, enabling us to compute them from energy relaxation simulations.
View Article and Find Full Text PDFInt J Biol Macromol
January 2025
Laboratory of Applied Chemistry and Environment, Faculty of Sciences, Ibn Zohr University, Agadir 80000, Morocco. Electronic address:
This research explores the biosorption of Rhodamine B (Rd-B) and Sunset Yellow (SY) dyes using cross-linked chitosan-alginate (Ch-A) biocomposite beads, combining experimental investigations with theoretical studies to elucidate the biosorption mechanisms. The biocomposite beads were synthesized through an eco-friendly cross-linking method, and their structural properties were characterized using various characterization techniques. Complementary theoretical studies using Monte Carlo (MC) simulations and molecular dynamics (MD) calculations provided insights into the molecular interactions between the dyes and the biocomposite beads.
View Article and Find Full Text PDFJ Am Chem Soc
January 2025
Department of Chemistry and Chemical Biology, TU Dortmund University, Otto-Hahn Str. 6, 44227 Dortmund, Germany.
Dynamically interconvertible metallo-supramolecular multicomponent assemblies, coexisting orthogonally in solution, serve as simplified mimics for complex networks found in biological systems. Building on recent advances in controlling the nonstatistical self-assembly of heteroleptic coordination cages and heteromeric completive self-sorting, i.e.
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