bluuebunny/crossref_metadata_2025_split huggingface dataset:
The role of SPATA2 in TNF signaling, cancer, and spermatogenesis
Authors: Masola Valentina , Greco Nicola , Tozzo Pamela , Caenazzo Luciana , Onisto Maurizio 
Published: November 2022

AbstractThe activation of TNF receptors can lead to cell death with a mechanism of cell necrosis regulated genetically and distinct from apoptosis which is defined as necroptosis. Necroptosis has been one of the most studied emerging cell death/signaling pathways in recent years, especially in light of the role of this process in human disease. However, not all regulatory components of TNF signaling have been identified in relation to both physiological and pathological conditions. In 2008, Spata2 (Spermatogenesis-associated protein 2) was identified as one of the seven fundamental genes for the cellular signaling network that regulates necroptosis and apoptosis. This gene had been cloned by our group and named Spata2 as its expression was found to be elevated in the testis compared to other tissues, localized at the Sertoli cell level and FSH-dependent. More recently, it has been demonstrated that deletion of Spata2 gene causes increased inhibin α expression and attenuated fertility in male mice. However, more importantly, five recently published reports have highlighted that SPATA2 is crucial for recruiting CYLD to the TNFR1 signaling complex thus promoting its activation leading to TNF-induced cell death. Loss of SPATA2 increases transcriptional activation of NF-kB and limits TNF-induced necroptosis. Here we will discuss these important findings regarding SPATA2 and, in particular, focus attention on the evidence that suggests a role for this protein in the TNF signaling pathway.
Metabolic and proteomic signatures of type 2 diabetes subtypes in an Arab population
Authors: Zaghlool Shaza B. , Halama Anna , Stephan Nisha , Gudmundsdottir Valborg , Gudnason Vilmundur , Jennings Lori L. , Thangam Manonanthini , Ahlqvist Emma , Malik Rayaz A. , Albagha Omar M. E. , Abou‑Samra Abdul Badi , Suhre Karsten 
Published: November 2022

AbstractType 2 diabetes (T2D) has a heterogeneous etiology influencing its progression, treatment, and complications. A data driven cluster analysis in European individuals with T2D previously identified four subtypes: severe insulin deficient (SIDD), severe insulin resistant (SIRD), mild obesity-related (MOD), and mild age-related (MARD) diabetes. Here, the clustering approach was applied to individuals with T2D from the Qatar Biobank and validated in an independent set. Cluster-specific signatures of circulating metabolites and proteins were established, revealing subtype-specific molecular mechanisms, including activation of the complement system with features of autoimmune diabetes and reduced 1,5-anhydroglucitol in SIDD, impaired insulin signaling in SIRD, and elevated leptin and fatty acid binding protein levels in MOD. The MARD cluster was the healthiest with metabolomic and proteomic profiles most similar to the controls. We have translated the T2D subtypes to an Arab population and identified distinct molecular signatures to further our understanding of the etiology of these subtypes.
Controlling Floquet states on ultrashort time scales
Authors: Lucchini Matteo , Medeghini Fabio , Wu Yingxuan , Vismarra Federico , Borrego-Varillas Rocío , Crego Aurora , Frassetto Fabio , Poletto Luca , Sato Shunsuke A. , Hübener Hannes , De Giovannini Umberto , Rubio Ángel , Nisoli Mauro 
Published: November 2022

AbstractThe advent of ultrafast laser science offers the unique opportunity to combine Floquet engineering with extreme time resolution, further pushing the optical control of matter into the petahertz domain. However, what is the shortest driving pulse for which Floquet states can be realised remains an unsolved matter, thus limiting the application of Floquet theory to pulses composed by many optical cycles. Here we ionized Ne atoms with few-femtosecond pulses of selected time duration and show that a Floquet state can be observed already with a driving field that lasts for only 10 cycles. For shorter pulses, down to 2 cycles, the finite lifetime of the driven state can still be explained using an analytical model based on Floquet theory. By demonstrating that the amplitude and number of Floquet-like sidebands in the photoelectron spectrum can be controlled not only with the driving laser pulse intensity and frequency, but also by its duration, our results add a new lever to the toolbox of Floquet engineering.
ARAS recent onset acute phase psychosis survey, a prospective observational cohort of first episode psychosis in Iran—the cohort profile
Authors: Farhang Sara , Shirzadi Maryam , Alikhani Rosa ,   ARAS investigators, Amiri Shahrokh , Mohagheghi Arash , Naghdi-sadeh Reza , Malek Ayyoub , Shafiei-kandjani Alireza , Ranjbar Fatemeh , Fakhari Ali , Noorazar Gholamreza , Herizchi Sepideh , Adalatzadeh Golnaz , Naderi Anis , Alizadeh Behrooz Z. , Bruggeman Richard , Veling Wim 
Published: November 2022

AbstractThe Middle East is underrepresented in psychosis research. The ARAS recent onset acute phase psychosis survey (ARAS) is a longitudinal cohort across multiple centers in Iran, established to investigate characteristics, determinants and early course of psychosis in a non-Western, Middle East context. Here, baseline characteristics of the ARAS cohort are reported. The ARAS cohort enrolled patients with recent onset psychosis from September 2018 to September 2021 in East Azerbaijan, Kermanshah and Tehran, including Iranian patients from different sociocultural contexts. The baseline assessment included demographics, socioeconomic status, clinical (positive, negative, depressive symptoms) and psychosocial (religiosity, social support, self-stigma) characteristics, cognitive functioning, metabolic profile, substance use and medication use measured by validated questionnaires. These assessments will be followed up after one and five years. A total of 500 patients with a first episode of psychosis were enrolled from three provinces in Iran. With 74.1% being male, the mean age (SD) of patients was 32.3 (9.7) years. Nearly a quarter of patients was diagnosed with schizophrenia and 36.8% with substance induced psychotic disorder. Amphetamine (24%) and opium (12%) use were common, cannabis use was not (5%). Only 6.1% of patients lived alone while 29% of patients was married and had children. The majority of them had achieved secondary educational level and 34% had a paid job. The most common antipsychotic treatment was risperidone. There was a wide range for scores of PANSS, with 9.4% having dominant negative symptoms. The most common prescribed medication was risperidone. Near to 40% of patients had noticeable signs of depression and prevalence of metabolic syndrome was 13.4%. The majority of patients (57.2%) had moderate and 5.4% reported to have severe disability. More than 30% reported to be highly religious. Patients had the highest satisfaction with people living with, and the lowest for finance and job.
So2Sat POP - A Curated Benchmark Data Set for Population Estimation from Space on a Continental Scale
Authors: Doda Sugandha , Wang Yuanyuan , Kahl Matthias , Hoffmann Eike Jens , Ouan Kim , Taubenböck Hannes , Zhu Xiao Xiang 
Published: November 2022

AbstractObtaining a dynamic population distribution is key to many decision-making processes such as urban planning, disaster management and most importantly helping the government to better allocate socio-technical supply. For the aspiration of these objectives, good population data is essential. The traditional method of collecting population data through the census is expensive and tedious. In recent years, statistical and machine learning methods have been developed to estimate population distribution. Most of the methods use data sets that are either developed on a small scale or not publicly available yet. Thus, the development and evaluation of new methods become challenging. We fill this gap by providing a comprehensive data set for population estimation in 98 European cities. The data set comprises a digital elevation model, local climate zone, land use proportions, nighttime lights in combination with multi-spectral Sentinel-2 imagery, and data from the Open Street Map initiative. We anticipate that it would be a valuable addition to the research community for the development of sophisticated approaches in the field of population estimation.
Impact of marital status on overall survival in patients with early-stage hepatocellular carcinoma
Authors: Chen Fangjie , Wu Ying , Xu Hong’en , Song Tao , Yan Senxiang 
Published: November 2022

AbstractThe purpose of the present research was to assess the prognostic impact of marital status in hepatocellular carcinoma (HCC) patients with tumors ≤ 2 cm (stage Ia) based on the data from the Surveillance, Epidemiology, and End Results (SEER) database. Patients who received a histopathologic HCC diagnosis between 2004 and 2016 were recruited. Overall survival (OS) was the major outcome measure. The Cox regression model and the Fine-Gray regression model were used for the purpose of comparing and examining the prognostic value of marital status for OS. The data for a total of 2446 stage Ia HCC patients were extracted from the database. The median overall survival time was 96.0 months, with 5-year and 10-year overall survival rates of 58.2% and 45.8%, respectively. In both the Fine-Gray regression model and Cox regression model, marital status [married vs. unmarried and others, both P < 0.001, hazard ratio (HR) = 1.389 for Cox and HR = 1.378 for Fine-Gray], age at diagnosis, tumor grade, and surgery at the primary site independently served as prognostic indicators associated with OS. In conclusion, positive marital status was independently associated with better OS for stage Ia HCC patients, and its prognostic influence should be validated in the near future.
Experimental and theoretical studies of linear and non-linear optical properties of novel fused-triazine derivatives for advanced technological applications
Authors: Al-Shamiri Hamdan A. S. , Sakr Mahmoud E. M. , Abdel-Latif Samir A. , Negm Nabel A. , Abou Kana Maram T. H. , El-Daly Samy A. , Elwahy Ahmed H. M. 
Published: November 2022

AbstractControlling photophysical properties is critical for the continued development of electroluminescent devices and luminescent materials. The preparation and study of novel molecules suitable as luminescent for the development of optoelectrical devices have recently received a lot of attention. Even though the as-triazine unit is a good building block for organic active substances, it is rarely used in this context. We created here novel bis-triazine derivative dyes in the far UV–Vis range by alkylation of triazine-thione derivatives with appropriate dibromo compounds. At the B3LYP/6-311**G(d,p) basis set, their optimal molecular structures were obtained. DFT technique confirmed that the new triazine derivatives are in noncoplanar with one of the two phenyl rings and the triazine plane rotating out by 102.09. Also, depending on the energy gap difference between HOMO and LUMO, some important parameters including chemical potential (π), electronegativity (χ), and chemical hardness (η) were calculated. The compounds may be readily polarized and have significant NLO characteristics, as seen by the tiny HOMO–LUMO energy gap. The calculated values for the polarizability (α) of the two new triazine derivatives have the range 6.09–10.75 × 10–24 (esu). The emission peaks seemed to move to the long-wavelength (redshift), with a rise in the fluorescence band, suggesting that the singlet excited state is more polar than the ground state. The influence of solvent polarity and the intermolecular charge transfer (ICT) processes are reflected in the photophysical properties of new fused triazine derivatives. These properties such as extinction coefficient, absorption and emission cross-sections, fluorescence quantum yield, fluorescence lifetime, oscillator strength, the dipole moment, radiative decay rate constant, the energy yield of fluorescence, and the attenuation length were assessed and discussed.
High speed photo-mediated ultrasound therapy integrated with OCTA
Authors: Li Yan , Song Yuchen , Li Runze , Jia Wangcun , Zhang Fengyi , Hu Xiaoming , Chou Lidek , Zhou Qifa , Chen Zhongping 
Published: November 2022

AbstractPhoto-mediated Ultrasound Therapy (PUT), as a new anti-vascular technique, can promote cavitation activity to selectively destruct blood vessels with a significantly lower amount of energy when compared to energy level required by other laser and ultrasound treatment therapies individually. Here, we report the development of a high speed PUT system based on a 50-kHz pulsed laser to achieve faster treatment, decreasing the treatment time by a factor of 20. Furthermore, we integrated it with optical coherence tomography angiography (OCTA) for real time monitoring. The feasibility of the proposed OCTA-guided PUT was validated through in vivo rabbit experiments. The addition of OCTA to PUT allows for quantitative prescreening and real time monitoring of treatment response, thereby enabling implementation of individualized treatment strategies.
Separation of hydrocarbons from activated carbon as a porous substance in a glycol regeneration process using supercritical carbon dioxide
Authors: Najafi Mohammad , Abousadi Zahra Arab , Honarvar Bizhan , Sajadian Seyed Ali 
Published: November 2022

AbstractActivated carbons are used in industrial applications; their cost is a major barrier to their more widespread application. Regeneration of activated carbons is indispensable to minimize operational costs and product wastage. Supercritical carbon dioxide (SC-CO2) as green technology was used to regenerate activated carbons. In this work, response surface methodology was employed to optimize the supercritical regeneration process and to evaluate the effect of the operational parameters including pressure (100–300 bar), temperature (313–333 K), flow rate (2–6 g/min), and dynamic time (30–150 min) on the regeneration yield. The maximum regeneration yield (93.71%) was achieved at 285 bar, 333 K, 4 g/min, and 147 min. Mathematical modeling was done using two one-parameter kinetics models, which agree well with the experimental data. The fitting parameter of the model was obtained by using a differential evolution algorithm. The chemical composition of the substances extracted from the activated carbon was identified by gas chromatography. The results showed that the regeneration of activated carbon by SC-CO2 can be an alternative method to conventional methods.
Characterization of the dynamics of Plasmodium falciparum deoxynucleotide-triphosphate pool in a stage-specific manner
Authors: Babai Réka , Izrael Richard , Vértessy Beáta G. 
Published: November 2022

AbstractUnderstanding and characterizing the molecular background of the maintenance of genomic integrity might be a major factor in comprehending the exceptional ability of the malaria parasite, Plasmodium falciparum to adapt at a fast pace to antimalarials. A balanced nucleotide pool is an essential factor for high-fidelity replication. The lack of detailed studies on deoxynucleotide-triphosphate (dNTP) pools in various intraerythrocytic stages of Plasmodium falciparum motivated our present study. Here, we focused on the building blocks of DNA and utilized an EvaGreen-based dNTP incorporation assay to successfully measure the temporal dynamics of dNTPs in every intraerythrocytic stage and in drug-treated trophozoites. Our findings show that the ratio of dNTPs in the ring-stage parasites significantly differs from the more mature trophozoite and schizont stages. We were also able to detect dGTP levels that have never been shown before and found it to be the least abundant dNTP in all stages. Treatment with WR99210, a TS-DHFR inhibitor drug, affected not only dTTP, but also dGTP levels, despite its presumed selective action on pyrimidine biosynthesis. Results from our studies might assist in a better understanding of genome integrity mechanisms and may potentially lead to novel drug related aspects involving purine and pyrimidine metabolic targets.
Searching glycolate oxidase inhibitors based on QSAR, molecular docking, and molecular dynamic simulation approaches
Authors: Cabrera Nicolás , Cuesta Sebastián A. , Mora José R. , Paz José Luis , Márquez Edgar A. , Espinoza-Montero Patricio J. , Marrero-Ponce Yovani , Pérez Noel , Contreras-Torres Ernesto 
Published: November 2022

AbstractPrimary hyperoxaluria type 1 (PHT1) treatment is mainly focused on inhibiting the enzyme glycolate oxidase, which plays a pivotal role in the production of glyoxylate, which undergoes oxidation to produce oxalate. When the renal secretion capacity exceeds, calcium oxalate forms stones that accumulate in the kidneys. In this respect, detailed QSAR analysis, molecular docking, and dynamics simulations of a series of inhibitors containing glycolic, glyoxylic, and salicylic acid groups have been performed employing different regression machine learning techniques. Three robust models with less than 9 descriptors—based on a tenfold cross (Q2CV) and external (Q2EXT) validation—were found i.e., MLR1 (Q2CV = 0.893, Q2EXT = 0.897), RF1 (Q2CV = 0.889, Q2EXT = 0.907), and IBK1 (Q2CV = 0.891, Q2EXT = 0.907). An ensemble model was built by averaging the predicted pIC50of the three models, obtaining a Q2EXT = 0.933. Physicochemical properties such as charge, electronegativity, hardness, softness, van der Waals volume, and polarizability were considered as attributes to build the models. To get more insight into the potential biological activity of the compouds studied herein, docking and dynamic analysis were carried out, finding the hydrophobic and polar residues show important interactions with the ligands. A screening of the DrugBank database V.5.1.7 was performed, leading to the proposal of seven commercial drugs within the applicability domain of the models, that can be suggested as possible PHT1 treatment.
Impaired macroglial development and axonal conductivity contributes to the neuropathology of DYRK1A-related intellectual disability syndrome
Authors: Pijuan Isabel , Balducci Elisa , Soto-Sánchez Cristina , Fernández Eduardo , Barallobre María José , Arbonés Maria L. 
Published: November 2022

AbstractThe correct development and activity of neurons and glial cells is necessary to establish proper brain connectivity. DYRK1A encodes a protein kinase involved in the neuropathology associated with Down syndrome that influences neurogenesis and the morphological differentiation of neurons. DYRK1A loss-of-function mutations in heterozygosity cause a well-recognizable syndrome of intellectual disability and autism spectrum disorder. In this study, we analysed the developmental trajectories of macroglial cells and the properties of the corpus callosum, the major white matter tract of the brain, in Dyrk1a+/− mice, a mouse model that recapitulates the main neurological features of DYRK1A syndrome. We found that Dyrk1a+/− haploinsufficient mutants present an increase in astrogliogenesis in the neocortex and a delay in the production of cortical oligodendrocyte progenitor cells and their progression along the oligodendroglial lineage. There were fewer myelinated axons in the corpus callosum of Dyrk1a+/− mice, axons that are thinner and with abnormal nodes of Ranvier. Moreover, action potential propagation along myelinated and unmyelinated callosal axons was slower in Dyrk1a+/− mutants. All these alterations are likely to affect neuronal circuit development and alter network synchronicity, influencing higher brain functions. These alterations highlight the relevance of glial cell abnormalities in neurodevelopmental disorders.
Estimates of prevalence, time-trend, and association of smoking in adults living with HIV, HBV, and HCV (NHANES 1999–2018)
Authors: Yang Jie , Lin Jin-Long , Liu Jing , Jiang Xiao-Wen , Zhang Hao , Peng Lei 
Published: November 2022

AbstractAlthough the smoking rate of human immunodeficiency virus (HIV), hepatitis B virus (HBV) or hepatitis C virus (HCV) infected people was much higher than that of the general population, smoking cessation interventions have long been ineffective. We aimed to examine the estimates of prevalence, time-trend, and association of smoking among people living with HIV, HBV, or HCV. This cohort was composed of 32,115 individuals from the NHANES database (1999–2018) and they were collected in the US. The time trend analysis of smoking and quitting rates was conducted using different years of survey follow-up and different infected groups. Multivariable logistic regression analysis was used to identify the risk factors related to smoking behavior of these infected people. Compared to non-infected smokers, infected smokers were more likely to be older (aged 30–39, OR = 9.92, CI 6.07–16.21; aged 40–49,OR = 3.51, CI 2.49–4.94), males (1.99, 1.54–2.55), lower education and economic level (1.78, 1.39–2.29; 2.05, 1.59–2.65), unemployed (1.63, 1.21–2.20), suffering depression (1.35, 1.05–1.72), and drug users (7.65, 5.04–11.59). Taken together, our study showed that these complex psychosocial characteristics and unhealthy behavioral factors might be major independent risk factors for increasing smoking rate and decreasing smoking cessation rate among these infected people.
Persistent organic pollutant exposure contributes to Black/White differences in leukocyte telomere length in the National Health and Nutrition Examination Survey
Authors: Roberts Emily K. , Boss Jonathan , Mukherjee Bhramar , Salerno Stephen , Zota Ami , Needham Belinda L. 
Published: November 2022

AbstractDespite racial disparities in diseases of aging and premature mortality, non-Hispanic Black Americans tend to have longer leukocyte telomere length (LTL), a biomarker of cellular aging, than non-Hispanic White Americans. Previous findings suggest that exposure to certain persistent organic pollutants (POPs) is both racially-patterned and associated with longer LTL. We examine whether Black/White differences in LTL are explained by differences in exposure to 15 POPs by estimating the indirect effect (IE) of self-reported race on LTL that is mediated through nine polychlorinated biphenyls (PCBs), three furans, and three dioxins, as well as their mixtures. Our study population includes 1,251 adults from the 1999–2000 and 2001–2002 cycles of the cross-sectional National Health and Nutrition Examination Survey. We characterized single-pollutant mediation effects by constructing survey-weighted linear regression models. We also implemented various approaches to quantify a global mediation effect of all POPs, including unpenalized linear regression, ridge regression, and examination of three summary exposure scores. We found support for the hypothesis that exposure to PCBs partially mediates Black/White differences in LTL. In single-pollutant models, there were significant IEs of race on LTL through six individual PCBs (118, 138, 153, 170, 180, and 187). Ridge regression (0.013, CI 0.001, 0.023; 26.0% mediated) and models examining summative exposure scores with linear combinations derived from principal components analysis (0.019, CI 0.009, 0.029; 34.8% mediated) and Toxic Equivalency Quotient (TEQ) scores (0.016, CI 0.005, 0.026; 28.8% mediated) showed significant IEs when incorporating survey weights. Exposures to individual POPs and their mixtures, which may arise from residential and occupational segregation, may help explain why Black Americans have longer LTL than their White counterparts, providing an environmental explanation for counterintuitive race differences in cellular aging.