In this work, we propose a new methodology to determine association scheme and association parameters (energy and volume) of a SAFT-type EoS for hydrogen-bonding molecules. This paper focuses on 1-alkanol molecules, but the new methodology can also be applied for any other associating system. The idea is to use molecular simulation technique to determine independently monomer and free hydrogen fractions from which the association scheme can be deduced. The 3B scheme thus appeared to be the most appropriate for 1-alkanols. Once the association scheme is defined, the association strength can be back-calculated from molecular simulation results and used as an independent property for the equation of state parameters regression, in addition of the classical phase properties such as vapor pressure and liquid molar volume. A new set of parameters for 1-alkanol for the PPC-SAFT equation of state has been proposed following this methodology. Results are found in good agreement with experimental data for both phase properties and free hydrogen-bonding sites. Hence, this new methodology makes it possible to optimize parameters allowing an accurate reproduction of pure compounds data and yielding physically significant values for associating energy and associating volume.
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Sci Rep
January 2025
Faculty of Medical Technology, Prince of Songkla University, Songkhla, 90110, Thailand.
Chamuangone, a compound extracted from the leaves of Garcinia cowa, exhibits various biological activities. Yet, its absorption, distribution, metabolism, excretion, and toxicity (ADMET) profile as well as anti-inflammatory effects in macrophages remain unexplored. In this study, we employed a computational tool to predict the ADMET profile of chamuangone and performed molecular docking simulations to assess its interactions with key proteins involved in inflammatory pathways.
View Article and Find Full Text PDFJ Nucl Med
January 2025
United Theranostics, Bethesda, Maryland.
Computational nuclear oncology for precision radiopharmaceutical therapy (RPT) is a new frontier for theranostic treatment personalization. A key strategy relies on the possibility to incorporate clinical, biomarker, image-based, and dosimetric information in theranostic digital twins (TDTs) of patients to move beyond a one-size-fits-all approach. The TDT framework enables treatment optimization by real-time monitoring of the real-world system, simulation of different treatment scenarios, and prediction of resulting treatment outcomes, as well as facilitating collaboration and knowledge sharing among health care professionals adopting a harmonized TDT.
View Article and Find Full Text PDFJ Chem Theory Comput
January 2025
Department of Physics, North Carolina State University, Raleigh, North Carolina 27695-8202, United States.
We present the theory, implementation, and benchmarking of a real-time time-dependent density functional theory (RT-TDDFT) module within the RMG code, designed to simulate the electronic response of molecular systems to external perturbations. Our method offers insights into nonequilibrium dynamics and excited states across a diverse range of systems, from small organic molecules to large metallic nanoparticles. Benchmarking results demonstrate excellent agreement with established TDDFT implementations and showcase the superior stability of our time integration algorithm, enabling long-term simulations with minimal energy drift.
View Article and Find Full Text PDFComput Biol Chem
January 2025
Virology and Vaccine Research and Development Program, Department of Science and Technology-Industrial Technology Development Institute, Taguig City, Metro Manila 1631, Philippines; S&T Fellows Program, Department of Science and Technology, Taguig City, Metro Manila 1631, Philippines; Department of Biology, College of Arts and Sciences, University of the Philippines - Manila, Metro Manila 1000, Philippines. Electronic address:
Nipah virus (NiV) is a re-emerging zoonotic pathogen with a high mortality rate and no effective treatments, prompting the search for new antiviral strategies. While conventional antiviral drugs are often limited by issues such as poor specificity, off-target effects, and resistance development, nanobodies offer distinct advantages. These small, single-domain antibodies exhibit high specificity and stability, making them ideal candidates for antiviral therapy.
View Article and Find Full Text PDFInt Immunopharmacol
January 2025
Chemical Injuries Research Center, Systems Biology and Poisonings Institute, Baqiyatallah University of Medical Sciences, Tehran, Iran.
Introduction: Biomarkers play a crucial role across various fields by providing insights into biological responses to interventions. High-throughput gene expression profiling technologies facilitate the discovery of data-driven biomarkers through extensive datasets. This study focuses on identifying biomarkers in gene expression data related to chemical injuries by mustard gas, covering a spectrum from healthy individuals to severe injuries.
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