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In this work, we introduce RGBChem, a novel approach for converting chemical compounds into image representations, which are subsequently used to train a convolutional neural network (CNN) to predict the HOMO-LUMO gap for compounds from the QM9 database. By modifying the arbitrary order of atoms present in .xyz files used to generate these images, it has been demonstrated that expanding the initial training set size can be achieved by creating multiple unique images (data points) from a single molecule. This study shows that the presented approach leads to a statistically significant improvement in model accuracy, highlighting RGBChem as a powerful approach for leveraging machine learning (ML) in scenarios where the available data set is too small to apply ML methods effectively.
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http://dx.doi.org/10.1021/acs.jctc.5c00291 | DOI Listing |
Top Curr Chem (Cham)
September 2025
Department of Organic Chemistry I, Faculty of Pharmacy and Lascaray Research Center, University of the Basque Country (UPV/EHU), Paseo de La Universidad 7, 01006, Vitoria-Gasteiz, Spain.
Aziridines, structurally related to epoxides, are among the most challenging and fascinating heterocycles in organic chemistry due to their increasing applications in asymmetric synthesis, medicinal chemistry, and materials science. These three-membered nitrogen-containing rings serve as key intermediates in the synthesis of chiral amines, complex molecules, and pharmaceutically relevant compounds. This review provides an overview of recent progress in catalytic asymmetric aziridination, focusing on novel methodologies, an analysis of the scope and limitations of each approach, and mechanistic insights.
View Article and Find Full Text PDFAnal Bioanal Chem
September 2025
Department of Analytical Chemistry and Reference Materials, Bundesanstalt für Materialforschung und -prüfung (BAM), Berlin, Germany.
Per- and polyfluoroalkyl substances (PFASs) are a large group of emerging organic pollutants that contaminate the environment, food, and consumer products. Textiles and other outdoor products are a major source of PFAS exposure due to their water-repellent impregnations. Determination of PFASs in textiles is increasingly important for enhancing their contribution to the circular economy.
View Article and Find Full Text PDFNat Biomed Eng
September 2025
Department of Biomedical Informatics, Harvard Medical School, Boston, MA, USA.
Phenotype-driven approaches identify disease-counteracting compounds by analysing the phenotypic signatures that distinguish diseased from healthy states. Here we introduce PDGrapher, a causally inspired graph neural network model that predicts combinatorial perturbagens (sets of therapeutic targets) capable of reversing disease phenotypes. Unlike methods that learn how perturbations alter phenotypes, PDGrapher solves the inverse problem and predicts the perturbagens needed to achieve a desired response by embedding disease cell states into networks, learning a latent representation of these states, and identifying optimal combinatorial perturbations.
View Article and Find Full Text PDFPhytochemistry
September 2025
State Key Laboratory of Phytochemistry and Natural Medicines, Kunming Institute of Botany, Chinese Academy of Sciences, Kunming 650201, People's Republic of China; Yunnan Characteristic Plant Extraction Laboratory Co. Ltd, Key Laboratory of Medicinal Chemistry for Natural Resource, Ministry of Educa
Alstoniaschines A‒I (1‒9), nine previously alkaloids sharing five different skeletons were obtained from the leaves of Alstonia scholaris. The structures and absolute configurations were established by their extensive spectroscopic data analyses, including NMR, HRESIMS, X-ray crystallography data, and theoretical ECD calculations. Compounds 1, 2, 3, and 9 exerted significant protective effect against oxidative stress and inflammatory damage of podocytes induced by high glucose, manifesting as the increase of superoxide dismutase, catalase, glutathione peroxidase, alongside the reductions of malondialdehyde, nitric oxide, lactate dehydrogenase.
View Article and Find Full Text PDFSteroids
September 2025
Department of Chemical Sciences, University of Naples Federico II, Naples I-80126, Italy.
Antimicrobial resistance is currently one of the most serious and alarming threats to human health; therefore, the identification of novel antimicrobial agents is a compelling need. Recently, we identified the heterocyclic steroid PYED-1 as a novel promising antibacterial and antibiofilm agent. In an effort to broaden the repertoire of active compounds and elucidate the structural features responsible for their antibacterial activity, two novel derivatives of PYED-1 have been conceived herein.
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