Accurate ab initio prediction of electronic energies is very expensive for macromolecules by explicitly solving post-Hartree-Fock equations. We here exploit the physically justified local correlation feature in a compact basis of small molecules and construct an expressive low-data deep neural network (dNN) model to obtain machine-learned electron correlation energies on par with MP2 and CCSD levels of theory for more complex molecules and different datasets that are not represented in the training set. We show that our dNN-powered model is data efficient and makes highly transferable predictions across alkanes of various lengths, organic molecules with non-covalent and biomolecular interactions, as well as water clusters of different sizes and morphologies. In particular, by training 800 (HO) clusters with the local correlation descriptors, accurate MP2/cc-pVTZ correlation energies up to (HO) can be predicted with a small random error within chemical accuracy from exact values, while a majority of prediction deviations are attributed to an intrinsically systematic error. Our results reveal that an extremely compact local correlation feature set, which is poor for any direct post-Hartree-Fock calculations, has however a prominent advantage in reserving important electron correlation patterns for making accurate transferable predictions across distinct molecular compositions, bond types, and geometries.
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http://dx.doi.org/10.1021/acs.jctc.3c00518 | DOI Listing |
Clin Epigenetics
January 2025
Centre for Genomic and Experimental Medicine, Institute of Genetics and Cancer, University of Edinburgh, Edinburgh, UK.
Alcohol consumption is an important risk factor for multiple diseases. It is typically assessed via self-report, which is open to measurement error through recall bias. Instead, molecular data such as blood-based DNA methylation (DNAm) could be used to derive a more objective measure of alcohol consumption by incorporating information from cytosine-phosphate-guanine (CpG) sites known to be linked to the trait.
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January 2025
Department of Animal & Dairy Sciences, University of Wisconsin-Madison, Madison, WI, 53706, USA.
Residual nitrite (NO) and nitrate (NO) have been widely studied in the past few decades for their function to improve processed meat quality and their impact on human health. In this study we examined how the residual nitrite and nitrate (NO) content of major classes of processed meats products (n = 1132) produced locally from three regions (East Coast, Midwest and West Coast) and plant protein-based meat analogues (n = 53) available at retail in the United States was influenced by their composition, processing, and geographical attributes. We also conducted time-dependent depletion studies and observed different patterns of NO depletion and conversion during processing and storage and correlated them with product quality.
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January 2025
Department of Neurology, Peking University First Hospital, Beijing, People's Republic of China.
Persistent Postural-Perceptual Dizziness (PPPD) is a common cause of chronic vestibular syndrome. Although previous studies have identified central abnormalities in PPPD, the specific neural circuits and the alterations in brain network topological properties, and their association with dizziness and postural instability in PPPD remain unclear. This study includes 30 PPPD patients and 30 healthy controls.
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January 2025
Center for Cancer Immunotherapy and Immunobiology, Kyoto University Graduate School of Medicine, Kyoto, Japan.
Menstrual pain affects women's quality of life and productivity, yet objective molecular markers for its severity have not been established owing to the variability in blood levels and chemical properties of potential markers such as plasma steroid hormones, lipid mediators, and hydrophilic metabolites. To address this, we conducted a metabolomics study using five analytical methods to identify biomarkers that differentiate menstrual pain severity. This study included 20 women, divided into mild (N = 12) and severe (N = 8) pain groups based on their numerical pain rating scale.
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January 2025
Division of Infectious Diseases, Department of Medicine, Columbia University Irving Medical Center, 622 West 168th Street, Ste. 876, New York, NY, 10032, USA.
The COVID-19 pandemic may have exacerbated mental health conditions by introducing and/or modifying stressors, particularly in university populations. We examined longitudinal patterns, time-varying predictors, and contemporaneous correlates of moderate-severe psychological distress (MS-PD) among college students. During 2020-2021, participants completed self-administered questionnaires quarterly (T1 = 562, T2 = 334, T3 = 221, and T4 = 169).
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