Our recent success in exploiting graphical processing units (GPUs) to accelerate quantum chemistry computations led to the development of the nanoreactor, a computational framework for automatic reaction discovery and kinetic model construction. In this work, we apply the nanoreactor to methane pyrolysis, from automatic reaction discovery to path refinement and kinetic modeling. Elementary reactions occurring during methane pyrolysis are revealed using GPU-accelerated molecular dynamics simulations. Subsequently, these reaction paths are refined at a higher level of theory with optimized reactant, product, and transition state geometries. Reaction rate coefficients are calculated by transition state theory based on the optimized reaction paths. The discovered reactions lead to a kinetic model with 53 species and 134 reactions, which is validated against experimental data and simulations using literature kinetic models. We highlight the advantage of leveraging local brute force and Monte Carlo sensitivity analysis approaches for efficient identification of important reactions. Both sensitivity approaches can further improve the accuracy of the methane pyrolysis kinetic model. The results in this work demonstrate the power of the nanoreactor framework for computationally affordable systematic reaction discovery and accurate kinetic modeling.
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http://dx.doi.org/10.1039/d3sc01202f | DOI Listing |
J Nat Prod
January 2025
Charlotte's Web, 700 Tech Court, Louisville, Colorado 80027, United States.
Cannabicyclol ((±)-CBL), a minor phytocannabinoid, is largely unexplored, with its biological activity previously undocumented. We studied its conversion from cannabichromene (CBC) using various acidic catalysts. Montmorillonite (K30) in chloroform at room temperature had the highest yield (60%) with minimal byproducts.
View Article and Find Full Text PDFBeilstein J Org Chem
January 2025
Institute of Materials Research and Engineering (IMRE), Agency for Science Technology and Research (A*STAR), 2 Fusionopolis Way, Singapore 138634, Republic of Singapore.
The discovery of the optimal conditions for chemical reactions is a labor-intensive, time-consuming task that requires exploring a high-dimensional parametric space. Historically, the optimization of chemical reactions has been performed by manual experimentation guided by human intuition and through the design of experiments where reaction variables are modified one at a time to find the optimal conditions for a specific reaction outcome. Recently, a paradigm change in chemical reaction optimization has been enabled by advances in lab automation and the introduction of machine learning algorithms.
View Article and Find Full Text PDFChem Sci
January 2025
Graduate School of Pharmaceutical Sciences, Tohoku University 6-3 Aoba, Aramaki, Aoba-ku Sendai 980-8578 Japan
Despite the evident demand and promising potential of disulfide-functionalized amino acids and peptides in linker chemistry and peptide drug discovery, those disulfurated specifically at the α-position constitute a unique yet rather highly underexplored chemical space. In this study, we have developed a method for preparing -linked amino acid/peptide derivatives through a base-catalyzed disulfuration reaction of azlactones, followed by the ring-opening functionalization. The disulfuration reaction proceeds under mild conditions, yielding disulfurated azlactones in excellent yields across a variety of -dithiophthalimides and diverse azlactones derived from various amino acids and peptides.
View Article and Find Full Text PDFMicrorna
January 2025
Department of Pathology, All India Institute of Medical Sciences, New Delhi, India.
Introduction: Micro ribonucleic acids (miRNAs) are small non-coding RNAs that modulate the expression of various genes. They have an important role in cancer pathogenesis. Differential expression of multiple miRNAs have been used as potential diagnostic and prognostic markers.
View Article and Find Full Text PDFLangmuir
January 2025
Department of Chemistry and Biochemistry, Fordham University, 441 East Fordham Road, The Bronx, New York 10458, United States.
The first protocells are speculated to have arisen from the self-assembly of simple abiotic carboxylic acids, alcohols, and other amphiphiles into vesicles. To study the complex process of vesicle formation, we combined laboratory automation with AI-guided experimentation to accelerate the discovery of specific compositions and underlying principles governing vesicle formation. Using a low-cost commercial liquid handling robot, we automated experimental procedures, enabling high-throughput testing of various reaction conditions for mixtures of seven (7) amphiphiles.
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