bluuebunny/crossref_metadata_2025_split huggingface dataset:
Comparative Study of Using Displacement Influence Lines and Their Derivatives for Structural Damage Identification
Authors: Nady Hazem O. , Abdo Mohamed A.-B. , Kaiser Fayez 
Published: July 2023

AbstractStructural damage identification has recently become one of the most important topics for engineering structures due to its benefits in enhancing safety, reducing life-cycle cost, and providing guidance for system construction and maintenance. This research studies the accuracy of using displacement influence lines (DIL) and their derivatives (first and second derivative) for detecting structural damage characteristics (location and severity). The study includes analytical and numerical studies to investigate the sensitivity of displacement influence lines and their derivatives (first and second derivative) as a main parameter for damage identification. The results illustrate that the method can locate and quantify damage in both simply supported and continuous beams without the need for an optimization algorithm. Although, for simply supported beam, the optimal location of the displacement measurement point is at the middle of span. While, for continuous beam, one displacement sensor at the middle of each span enables locating the damages reliably. The advantages and disadvantages of using this index are also discussed.
Higher-order error estimates for physics-informed neural networks approximating the primitive equations
Authors: Hu Ruimeng , Lin Quyuan , Raydan Alan , Tang Sui 
Published: July 2023

AbstractLarge-scale dynamics of the oceans and the atmosphere are governed by primitive equations (PEs). Due to the nonlinearity and nonlocality, the numerical study of the PEs is generally challenging. Neural networks have been shown to be a promising machine learning tool to tackle this challenge. In this work, we employ physics-informed neural networks (PINNs) to approximate the solutions to the PEs and study the error estimates. We first establish the higher-order regularity for the global solutions to the PEs with either full viscosity and diffusivity, or with only the horizontal ones. Such a result for the case with only the horizontal ones is new and required in the analysis under the PINNs framework. Then we prove the existence of two-layer tanh PINNs of which the corresponding training error can be arbitrarily small by taking the width of PINNs to be sufficiently wide, and the error between the true solution and its approximation can be arbitrarily small provided that the training error is small enough and the sample set is large enough. In particular, all the estimates are a priori, and our analysis includes higher-order (in spatial Sobolev norm) error estimates. Numerical results on prototype systems are presented to further illustrate the advantage of using the $$H^s$$

H
s

norm during the training.
Evaluating Inventory Management Policies of Platelets at Regional-Block Blood Centers in Japan
Authors: Ito Mari , Takashima Ryuta 
Published: July 2023

AbstractWith the decreasing proportion of blood donors to patients undergoing transfusion in Japan, optimal blood-product management is becoming increasingly important. Accordingly, we evaluate blood-product inventory management by means of mathematical optimization techniques. Using numerical analyses, we determine the effect of differences in the priority of collections on the units of discarded platelets, and demonstrate the impact of safety-stock levels upon these units. Our results suggest that policymakers should implement the following measures to minimize their disposal rates. Regional-block blood centers with significant fluctuations in demand must generate schedules that minimize both the units of platelets collected, and those interchanged to the maximal extent. Conversely, centers with smaller fluctuations in demand must generate schedules wherein a constant number of platelets is collected every day. Safety-stock levels should be revised in accordance with demands. Furthermore, our policy proposals should be able to mitigate social damage to the blood-supply chain over the course of the COVID-19 pandemic.
DNA methylation in the genesis, progress and prognosis of head and neck cancer
Authors: Guo Zijian , Liu Wenwen , Yang Yuhan , Zhang Shunhao , Li Chunjie , Yang Wenbin 
Published: July 2023

AbstractEpigenetic alteration studies in cancer research have been progressing rapidly in recent years. DNA methylation, including DNA hypermethylation and DNA hypomethylation, is one of the main epigenetic alterations in head and neck cancer development. Here, we review recent advances in DNA methylation and factors affecting DNA methylation, including DNA methylation enzymes, HPV status and smoking and drinking habits, in the field of head and neck cancer occurrence, progression, metastasis, and prognosis, hoping to shed light on how DNA methylation interacts with head and neck cancer and lay a foundation for future prognosis prediction and therapy.
Coupling the interactive effects of solar radiation, temperature and nitrogen on performance of transplanted rice
Authors: Garima  , Sandhu S. S. , Bons M. S. , Kaur Amarjeet , Prabhjyot-Kaur  , Kaur Simerjeet , Gill K. K. , Walia S. S. 
Published: July 2023

AbstractField experiment to assess the impact of radiation, temperature and foliar N application on rice was conducted. The treatments comprised of four sunlight levels, [control, 50% intensity during start to maximum tillering (R15–45), maximum tillering to booting (R46–75) and panicle emergence to maturity (R76–105) corresponding to 15–45, 46–75 and 76–105 days after transplanting] and 5 levels of foliar nitrogen [control, spray of 3% urea solution in water before (NB), midway (NM), afterwards (NA) and midway + afterwards (NMA) reduction in sunlight]. Results showed that leaf chlorophyll had an inverse relationship with radiation intensity. The R46–75 significantly reduced effective tillers (13.1–16.4%), R46–75 and R76–105 reduced grains/panicle (7.15–12.5%) as compared to control. NB produced significantly higher effective tillers (21.9–24.7%) and grains/panicle (12.2–12.9%) as compared to control. The reduction in sunlight and application of foliar nitrogen increased the minimum cooking time and decreased elongation ratio. Averaged over locations, R15–45, R46–75 and R76–105 decreased the yield significantly as compared to control by 9.29–11.3, 14.4–16.3 and 8.17–10.6%, respectively. The NB significantly increased grain yield as compared to control by 10.3% (Ludhiana) and 9.45% (Hoshiarpur). A decrease in maximum temperature (Tmax) by 2.85–5.70% (1–2°C) of 35.1°C, at 1416 μmol/m2/s of photosynthetically active radiation (PAR) increased rice productivity by 10.6–21.0%, while a similar decrease in PAR by 2.85–5.70% at a Tmax of 35.1°C, decreased the productivity by 2.05–4.10%. So, decrease in Tmax due to cloudy weather might have a positive influence while negative impact of deficit radiation may be mitigated by foliar application of 3% urea prior to/during the cloudy weather.
Investigation of the presence of atopy in children visiting the paediatric cardiology department due to chest pain
Authors: Duksal Fatma , Doğan Melih Timuçin 
Published: July 2023

AbstractBackground:The cases of chest pain in children are usually not of cardiac origin.Objectives:To investigate asthma and other atopic diseases in children with chest pain not of cardiac origin.Patients and Methods:Children aged 6–18 years who were seen for chest pain were included in the study. Haematologic parameters, pulmonary function tests, and skin prick tests were performed. Atopic diseases and environmental factors were investigated.Results:The non-cardiac chest pain group (Group 1) included 88 children (female: 53.4%) with a mean age of 11.9 ± 3.4 years; the control group (Group 2) included 29 children (female: 53.8%) with a mean age of 11.4±2 years (p > 0.05). A family history of atopy (22.7%) and skin prick test positivity (28.4%) was more common in Group 1 than Group 2 (p = 0.006 and p = 0.017, respectively). The rate of presence of all environmental factors except stove use and mould was significantly higher in Group 1 (54.5%) than Group 2 (3.4%) (p < 0.001). Asthma was diagnosed in 44.3% and allergic rhinitis in 9.1% of patients in Group 1. Idiopathic chest pain, musculoskeletal system disorders, gastroesophageal reflux, and pneumonia were identified in 23.9%, 11.4%, 8%, and 3.4% of patients in Group 1, respectively.Conclusions:In this study, the most common cause of non-cardiac chest pain was asthma. The local prevalence of asthma is higher than normal, and this may have affected the results of this study. A detailed history and physical examination will accurately establish the cause of chest pain in most children.
Reversible complete atrioventricular block in a neonate with maternal anti-Sjögren’s syndrome-associated antibody: atypical phenotype of autoimmune congenital heart block
Authors: Saiki Hirofumi , Saito Kanchi , Sato Akira 
Published: July 2023

AbstractThe fetus of anti-Sjögren’s syndrome-associated antibody-positive mother developed complete atrioventricular block at 39 weeks of gestation and required urgent ventricular pacing after birth. Unexpectedly, the patient recovered from the atrioventricular block within a few days. Fraction analysis of maternal anti-Sjögren’s syndrome-associated antibody revealed positivity for isolated anti-Ro/SSA 60 kDa antibody, which is abnormal as most patients with complete atrioventricular block present with anti-Ro/SSA 52 kDa positivity, which may indicate a potentially atypical late and reversible manifestation of an autoimmune congenital atrioventricular block in this patient.
Combination of Vegetation Indices and SIF Can Better Track Phenological Metrics and Gross Primary Production
Authors: Zheng Chen , Wang Shaoqiang , Chen Jing M. , Chen Jinghua , Chen Bin , He Xinlei , Li Hui , Sun Leigang 
Published: July 2023

AbstractAccurate phenological extraction is important for estimating carbon uptake in terrestrial ecosystems under climate change. The emergence of remotely sensed vegetation indices (VIs) and solar‐induced chlorophyll fluorescence (SIF) provides multiple approaches for extracting land surface phenology. However, there is lacking studies to track phenological metrics via multiple VIs and SIF. Therefore, the advantage of combining VIs and SIF to estimate more accurate phenology requires exploration. In this study, we combined the advantages of the normalized difference, enhanced, green‐red, near‐infrared reflectance vegetation indices from MCD43A4 data set, and SIF from CSIF data set to estimate hybrid phenology at 20 eddy flux sites in North America. Results showed that the hybrid phenology derived from the best‐performing start (SOS) and end (EOS) of the growing season among multiple VIs and SIF for each plant functional type and site were both more consistent with those derived from gross primary production (GPP). Specifically, the R2 of hybrid phenology increased by 0.11–0.4 (0.04–0.4) for SOS, 0.01–0.24 (0.09–0.22) for EOS, 0.01–0.7 (0.05–0.34) for the length of the growing season (LOS) based on Gaussian (logistic) method. Moreover, hybrid phenology can improve the explanation of the seasonal and annual variations in GPP. The explanatory power of hybrid phenology for GPP variations increased by 0.05–0.15 (0.02–0.23) for SOS, 0–0.36 (0.11–0.27) for EOS, 0.01–0.51 (0.03–0.4) for LOS, 0.04–0.18 (0.04–0.16) for LOS seasonal GPP maximum based on Gaussian (logistic) method. These findings highlight the potential of combining high‐spatiotemporal structural and coarse‐spatiotemporal physiological vegetation indicators in tracking phenology and GPP.
Marine Dimethyl Sulfide Fluxes in the Yellow and East China Seas: Scenario Variation During the 1980s–2090s and Its Drivers
Authors: Shen Jia‐Wei , Zhao Liang , Wei Hao 
Published: July 2023

AbstractShedding light on the response of oceanic dimethyl sulfide flux (FDMS) on the sea shelf to multi‐pressures (intensified terrigenous nutrient inputs and climate change) is of great importance for regional aerosol budget. Here, we designed 4‐group experiments in scenario (the 1980s, 2010s, 2050s, and 2090s) for the Yellow and East China seas (YECS) based on climate change signals gained from CMIP6 and a 3‐dimension biophysical and geochemical model. Results show that the climatological annual mean of YECS's FDMS will rise from ∼6 μmol m−2 day−1 in the 1980s to >9 μmol m−2 day−1 in the 2090s under Shared Socioeconomic Pathway (SSP) 2−4.5/5−8.5 scenario, and with multi‐pressures, the FDMS peak in the 2050s is one season earlier when compared to that in the 1980s. The elevated terrigenous inputs affect the phytoplankton biomass and/or community on the inner shelf, leading to the rise and phenology change in the YECS's FDMS between the1980s and 2010s, while climate change has little impact. The influence of climate change on the FDMS is projected to increase in the 2050s; climate change will change seasonal pattern of the FDMS on the central part (middle and outer shelves) of East China Sea (CECS) under every SSP scenario. Thereinto, wind change exerts a crucial role, it will enhance summertime offshore transport and, accordingly, stimulate phytoplankton growth in summer changing the phenology of FDMS on the CECS.
SPRR1A is a key downstream effector of MiR-150 during both maladaptive cardiac remodeling in mice and human cardiac fibroblast activation
Authors: Kawaguchi Satoshi , Moukette Bruno , Sepúlveda Marisa N. , Hayasaka Taiki , Aonuma Tatsuya , Haskell Angela K. , Mah Jessica , Liangpunsakul Suthat , Tang Yaoliang , Conway Simon J. , Kim Il-man 
Published: July 2023

AbstractMicroRNA-150 (miR-150) is conserved between rodents and humans, is significantly downregulated during heart failure (HF), and correlates with patient outcomes. We previously reported that miR-150 is protective during myocardial infarction (MI) in part by decreasing cardiomyocyte (CM) apoptosis and that proapoptotic small proline-rich protein 1a (Sprr1a) is a direct CM target of miR-150. We also showed that Sprr1a knockdown in mice improves cardiac dysfunction and fibrosis post-MI and that Sprr1a is upregulated in pathological mouse cardiac fibroblasts (CFs) from ischemic myocardium. However, the direct functional relationship between miR-150 and SPRR1A during both post-MI remodeling in mice and human CF (HCF) activation was not established. Here, using a novel miR-150 knockout;Sprr1a-hypomorphic (Sprr1ahypo/hypo) mouse model, we demonstrate that Sprr1a knockdown blunts adverse post-MI effects caused by miR-150 loss. Moreover, HCF studies reveal that SPRR1A is upregulated in hypoxia/reoxygenation-treated HCFs and is downregulated in HCFs exposed to the cardioprotective β-blocker carvedilol, which is inversely associated with miR-150 expression. Significantly, we show that the protective roles of miR-150 in HCFs are directly mediated by functional repression of profibrotic SPRR1A. These findings delineate a pivotal functional interaction between miR-150 and SPRR1A as a novel regulatory mechanism pertinent to CF activation and ischemic HF.
Mutant APC reshapes Wnt signaling plasma membrane nanodomains by altering cholesterol levels via oncogenic β-catenin
Authors: Erazo-Oliveras Alfredo , Muñoz-Vega Mónica , Mlih Mohamed , Thiriveedi Venkataramana , Salinas Michael L. , Rivera-Rodríguez Jaileen M. , Kim Eunjoo , Wright Rachel C. , Wang Xiaoli , Landrock Kerstin K. , Goldsby Jennifer S. , Mullens Destiny A. , Roper Jatin , Karpac Jason , Chapkin Robert S. 
Published: July 2023

AbstractAlthough the role of the Wnt pathway in colon carcinogenesis has been described previously, it has been recently demonstrated that Wnt signaling originates from highly dynamic nano-assemblies at the plasma membrane. However, little is known regarding the role of oncogenic APC in reshaping Wnt nanodomains. This is noteworthy, because oncogenic APC does not act autonomously and requires activation of Wnt effectors upstream of APC to drive aberrant Wnt signaling. Here, we demonstrate the role of oncogenic APC in increasing plasma membrane free cholesterol and rigidity, thereby modulating Wnt signaling hubs. This results in an overactivation of Wnt signaling in the colon. Finally, using theDrosophilasterol auxotroph model, we demonstrate the unique ability of exogenous free cholesterol to disrupt plasma membrane homeostasis and drive Wnt signaling in a wildtype APC background. Collectively, these findings provide a link between oncogenic APC, loss of plasma membrane homeostasis and CRC development.
Estimating long-term vaccine effectiveness against SARS-CoV-2 variants: a model-based approach
Authors: Hogan Alexandra B. , Doohan Patrick , Wu Sean L. , Mesa Daniela Olivera , Toor Jaspreet , Watson Oliver J. , Winskill Peter , Charles Giovanni , Barnsley Gregory , Riley Eleanor M. , Khoury David S. , Ferguson Neil M. , Ghani Azra C. 
Published: July 2023

AbstractWith the ongoing evolution of the SARS-CoV-2 virus updated vaccines may be needed. We fitted a model linking immunity levels and protection to vaccine effectiveness data from England for three vaccines (Oxford/AstraZeneca AZD1222, Pfizer-BioNTech BNT162b2, Moderna mRNA-1273) and two variants (Delta, Omicron). Our model reproduces the observed sustained protection against hospitalisation and death from the Omicron variant over the first six months following dose 3 with the ancestral vaccines but projects a gradual waning to moderate protection after 1 year. Switching the fourth dose to a variant-matched vaccine against Omicron BA.1/2 is projected to prevent nearly twice as many hospitalisations and deaths over a 1-year period compared to administering the ancestral vaccine. This result is sensitive to the degree to which immunogenicity data can be used to predict vaccine effectiveness and uncertainty regarding the impact that infection-induced immunity (not captured here) may play in modifying future vaccine effectiveness.
Water nanolayer facilitated solitary-wave-like blisters in MoS2 thin films
Authors: Wang Enze , Xiong Zixin , Chen Zekun , Xin Zeqin , Ma Huachun , Ren Hongtao , Wang Bolun , Guo Jing , Sun Yufei , Wang Xuewen , Li Chenyu , Li Xiaoyan , Liu Kai 
Published: July 2023

AbstractSolitary waves are unique in nonlinear systems, but their formation and propagation in the nonlinear fluid-structure interactions have yet to be further explored. As a typical nonlinear system, the buckling of solid thin films is fundamentally related to the film-substrate interface that is further vulnerable to environments, especially when fluids exist. In this work, we report an anomalous, solitary-wave-like blister (SWLB) mode of MoS2 thin films in a humid environment. Unlike the most common telephone-cord and web buckling deformation, the SWLB propagates forward like solitary waves that usually appear in fluids and exhibits three-dimensional expansions of the profiles during propagation. In situ mechanical, optical, and topology measurements verify the existence of an interfacial water nanolayer, which facilitates a delamination of films at the front side of the SWLB and a readhesion at the tail side owing to the water nanolayer-induced fluid-structure interaction. Furthermore, the expansion morphologies and process of the SWLB are predicted by our theoretical model based on the energy change of buckle propagation. Our work not only demonstrates the emerging SWLB mode in a solid material but also sheds light on the significance of interfacial water nanolayers to structural deformation and functional applications of thin films.
GPCRome-wide analysis of G-protein-coupling diversity using a computational biology approach
Authors: Matic Marin , Miglionico Pasquale , Tatsumi Manae , Inoue Asuka , Raimondi Francesco 
Published: July 2023

AbstractGPCRs are master regulators of cell signaling by transducing extracellular stimuli into the cell via selective coupling to intracellular G-proteins. Here we present a computational analysis of the structural determinants of G-protein-coupling repertoire of experimental and predicted 3D GPCR-G-protein complexes. Interface contact analysis recapitulates structural hallmarks associated with G-protein-coupling specificity, including TM5, TM6 and ICLs. We employ interface contacts as fingerprints to cluster Gs vs Gi complexes in an unsupervised fashion, suggesting that interface residues contribute to selective coupling. We experimentally confirm on a promiscuous receptor (CCKAR) that mutations of some of these specificity-determining positions bias the coupling selectivity. Interestingly, Gs-GPCR complexes have more conserved interfaces, while Gi/o proteins adopt a wider number of alternative docking poses, as assessed via structural alignments of representative 3D complexes. Binding energy calculations demonstrate that distinct structural properties of the complexes are associated to higher stability of Gs than Gi/o complexes. AlphaFold2 predictions of experimental binary complexes confirm several of these structural features and allow us to augment the structural coverage of poorly characterized complexes such as G12/13.
A preclinical secondary pharmacology resource illuminates target-adverse drug reaction associations of marketed drugs
Authors: Sutherland Jeffrey J. , Yonchev Dimitar , Fekete Alexander , Urban Laszlo 
Published: July 2023

AbstractIn vitro secondary pharmacology assays are an important tool for predicting clinical adverse drug reactions (ADRs) of investigational drugs. We created the Secondary Pharmacology Database (SPD) by testing 1958 drugs using 200 assays to validate target-ADR associations. Compared to public and subscription resources, 95% of all and 36% of active (AC50 < 1 µM) results are unique to SPD, with bias towards higher activity in public resources. Annotating drugs with free maximal plasma concentrations, we find 684 physiologically relevant unpublished off-target activities. Furthermore, 64% of putative ADRs linked to target activity in key literature reviews are not statistically significant in SPD. Systematic analysis of all target-ADR pairs identifies several putative associations supported by publications. Finally, candidate mechanisms for known ADRs are proposed based on SPD off-target activities. Here we present a freely-available resource for benchmarking ADR predictions, explaining phenotypic activity and investigating clinical properties of marketed drugs.
Crystal structures of herbicide-detoxifying esterase reveal a lid loop affecting substrate binding and activity
Authors: Liu Bin , Wang Weiwu , Qiu Jiguo , Huang Xing , Qiu Shenshen , Bao Yixuan , Xu Siqiong , Ruan Luyao , Ran Tingting , He Jian 
Published: July 2023

AbstractSulE, an esterase, which detoxifies a variety of sulfonylurea herbicides through de-esterification, provides an attractive approach to remove environmental sulfonylurea herbicides and develop herbicide-tolerant crops. Here, we determined the crystal structures of SulE and an activity improved mutant P44R. Structural analysis revealed that SulE is a dimer with spacious binding pocket accommodating the large sulfonylureas substrate. Particularly, SulE contains a protruding β hairpin with a lid loop covering the active site of the other subunit of the dimer. The lid loop participates in substrate recognition and binding. P44R mutation altered the lid loop flexibility, resulting in the sulfonylurea heterocyclic ring repositioning to a relative stable conformation thus leading to dramatically increased activity. Our work provides important insights into the molecular mechanism of SulE, and establish a solid foundation for further improving the enzyme activity to various sulfonylurea herbicides through rational design.