bluuebunny/crossref_metadata_2025_split huggingface dataset:
The effect of miR-372-5p regulation on CDX1 and CDX2 in the gastric cancer cell line
Authors: Gharakhyli Elaheh Asghari , Tabar Molla Hassan Agheel , Alipour Majid , Vahidi Sogand , Samadani Ali Akbar 
Published: February 2023

Abstract

Objectives

MicroRNA expression disruptions play an important function in the expansion of gastric cancer. Previous investigation has indicated that miR-372-5p doing as an oncogene in several malignancies. CDX1 and CDX2, as target genes of miR-372-5p, play the role of tumor suppressors and oncogenes in gastric cancer cells, respectively. The current investigation explored the effects of miR-372-5p regulation on CDX2 and CDX1 in AGS cell lines and studied their molecular mechanism.

Methods

hsa-miR-372-5p miRCURY LNA miRNA Inhibitors and Mimic were transfected into AGS cell line. The cell viability and cell cycle calculation were defined by MTT assay and flow cytometry, respectively. The Expression levels of miR-372-5p, CDX1, CDX2 and transfection efficiency were measured using Real-time PCR. Statistical investigation p values <0.05 were considered to be meaningful.

Results
miR-372-5p particularly was upregulated in control cells and also after transfection by mimic. While its expression was reduced by the inhibitor. Upregulation of miR-372-5p remarkably increased cell growth and led to accumulation in the G2/M phase, although the inhibitor decreased cell growth and accumulation in the S phase. Accordingly, upregulation of miR-372-5p increased CDX2 and decreased CDX1 expression. By inhibition of miR-372-5p, expression of CDX2 was decreased and expression of CDX1 was increased.

Conclusions
Up and down-regulation of miR-372-5P has a potential effect on the expression levels of its target genes, CDX1 and CDX22. Accordingly, the downregulation of miR-372-5p may be assumed as a possible therapeutic target in treating gastric cancer.
Plasma IL-6, TREM1, uPAR, and IL6/IL8 biomarkers increment further witnessing the chronic inflammation in type 2 diabetes
Authors: Sater Mai S. , AlDehaini Dhuha M. B. , Malalla Zainab Hasan Abdulla , Ali Muhalab E. , Giha Hayder Ahmed 
Published: February 2023

Abstract

Objectives
Type 2 diabetes (T2D) is known to be associated with chronic inflammation, but the inflammatory regulators/markers are not exactly defined and the link between them remains undetermined. The objective of this study is to identify these markers by testing traditional (IL6 & IL8) and non-traditional (TREM1 & uPAR) inflammatory markers.

Methods
Data and blood samples were obtained from 114 T2D and 74 non-diabetic Kuwaiti subjects attending health facilities in Kuwait. Chemical analyzers were used to measure glycemic and lipid profiles, while ELISA was used to measure plasma levels of insulin and several inflammatory markers.

Results
Showed that the IL-6 and TREM1 were significantly higher in T2D compared to non-diabetic controls, and the uPAR level was borderline higher in T2D but significantly correlated with IL-6 levels. Unexpectedly, IL8 was significantly below normal in T2D and IL6/IL8 ratio was significantly higher in T2D patients. Unlike other tested markers, uPAR was in addition strongly correlated with insulin levels and HOMA-IR index.

Conclusions
Raised levels of IL6, TREMI, IL6/IL8 ratio, and the strong positive correlation of plasma levels of uPAR with IL-6, insulin, and HOMA-IR index, are reliable spectators of chronic inflammation in T2D patients. The reduced level of IL-8 in T2D was a peculiar observation that needs further explanation. Finally, the consequences and impact of the sustained rise of these inflammatory regulators in diabetic tissues need to be meticulously explored.
Simulating the impact of influencing factors over attenuation in fiber optics
Authors: Soni Priya , Dhayal Sardul Singh , Vinita  
Published: February 2023

Abstract
Optical fiber transmission capacity is a solution that can fulfill the community’s bandwidth demands, which are on the rise owing to the extensive use of the Internet and cellular communications in contemporary society. It has been observed that fiber optic transmission is influenced due to attenuation. The present research is considering various factors that are responsible for attenuation. In present work 1310 nm and 1550 nm fibers are used for simulation. Simulation has been performed in MATLAB environment using signal distortion, multipath distortion, and attenuation in fiber optics according to increasing distance. Simulation is also considering attenuation in fiber optics with respect to joints for wavelength.
New bat records for altitudinal Atlantic Forest in Espírito Santo, southeastern Brazil
Authors: Vela-Ulian Carina Maria , Ditchfield Albert David , Srbek-Araujo Ana Carolina 
Published: February 2023

Abstract
We report two new bat records for Espírito Santo State (Brazil), increasing the local list to 88 species. Two individuals of Myotis izecksohni were collected with mist net, while Molossops temminckii was identified from bioacoustic recordings. Both species were recorded in the Serra do Caparaó region, characterized by high-altitude Atlantic Forest, located in the southwest portion of Espírito Santo State. With these new records, the state is now home to 48.6% of the chiropterofauna known to Brazil.
Causal relationships between cryptocurrencies: the effects of sampling interval and sample size
Authors: Köse Nezir , Ünal Emre 
Published: February 2023

Abstract
For this paper, the relationship between seventeen popular cryptocurrencies was analyzed by multivariate Granger causality tests and simple linear regression, using data spanning the period 1 September 2020 to 8 December 2021. The novelty of this work is that it studies the effects of sampling interval and sample size in cryptocurrency markets, which can yield significantly different results. Minute-by-minute, hourly and daily data were collected to examine the Granger causality relationship between cryptocurrencies. It was found that all the currencies demonstrated a significant causality relationship when high frequency (such as minute-by-minute) data was used, in contrast to hourly and daily data. The bigger the sample size, the higher the probability of rejecting the null hypothesis. Hence, the null hypothesis for the Granger causality test can be rejected for minute-by-minute time series data because of too large a sample size. Granger causality test results for hourly and daily data indicated that Bitcoin, Ethereum Classic, and Neo were leading indicators among the cryptocurrencies included in the research. In addition, according to simple linear regression analysis, the short term marginal effect of Bitcoin plays an important role by creating significant impacts on other cryptocurrencies.
Ribosomes in RNA Granules Are Stalled on mRNA Sequences That Are Consensus Sites for FMRP Association
Authors: Anadolu Mina N. , Sun Jingyu , Kailasam Senthilkumar , Chalkiadaki Kleanthi , Krimbacher Konstanze , Li Jewel T-Y. , Markova Teodora , Jafarnejad Seyed M. , Lefebvre Francois , Ortega Joaquin , Gkogkas Christos G. , Sossin Wayne S. 
Published: February 2023

Local translation in neurons is partly mediated by the reactivation of stalled polysomes. Stalled polysomes may be enriched within the granule fraction, defined as the pellet of sucrose gradients used to separate polysomes from monosomes. The mechanism of how elongating ribosomes are reversibly stalled and unstalled on mRNAs is still unclear. In the present study, we characterize the ribosomes in the granule fraction using immunoblotting, cryogenic electron microscopy (cryo-EM), and ribosome profiling. We find that this fraction, isolated from 5-d-old rat brains of both sexes, is enriched in proteins implicated in stalled polysome function, such as the fragile X mental retardation protein (FMRP) and Up-frameshift mutation 1 homologue. Cryo-EM analysis of ribosomes in this fraction indicates they are stalled, mainly in the hybrid state. Ribosome profiling of this fraction reveals (1) an enrichment for footprint reads of mRNAs that interact with FMRPs and are associated with stalled polysomes, (2) an abundance of footprint reads derived from mRNAs of cytoskeletal proteins implicated in neuronal development, and (3) increased ribosome occupancy on mRNAs encoding RNA binding proteins. Compared with those usually found in ribosome profiling studies, the footprint reads were longer and were mapped to reproducible peaks in the mRNAs. These peaks were enriched in motifs previously associated with mRNAs cross-linked to FMRPin vivo, independently linking the ribosomes in the granule fraction to the ribosomes associated with FMRP in the cell. The data supports a model in which specific sequences in mRNAs act to stall ribosomes during translation elongation in neurons.SIGNIFICANCE STATEMENTNeurons send mRNAs to synapses in RNA granules, where they are not translated until an appropriate stimulus is given. Here, we characterize a granule fraction obtained from sucrose gradients and show that polysomes in this fraction are stalled on consensus sequences in a specific state of translational arrest with extended ribosome-protected fragments. This finding greatly increases our understanding of how neurons use specialized mechanisms to regulate translation and suggests that many studies on neuronal translation may need to be re-evaluated to include the large fraction of neuronal polysomes found in the pellet of sucrose gradients used to isolate polysomes.
In VivoPhotoadduction of Anesthetic Ligands in Mouse Brain Markedly Extends Sedation and Hypnosis
Authors: McKinstry-Wu Andrew R. , Wasilczuk Andrzej Z. , Dailey William P. , Eckenhoff Roderic G. , Kelz Max B. 
Published: February 2023

Photoaffinity ligands are best known as tools used to identify the specific binding sites of drugs to their molecular targets. However, photoaffinity ligands have the potential to further define critical neuroanatomic targets of drug action. In the brains of WT male mice, we demonstrate the feasibility of using photoaffinity ligandsin vivoto prolong anesthesia via targeted yet spatially restricted photoadduction of azi-m-propofol (aziPm), a photoreactive analog of the general anesthetic propofol. Systemic administration of aziPm with bilateral near-ultraviolet photoadduction in the rostral pons, at the border of the parabrachial nucleus and locus coeruleus, produced a 20-fold increase in the duration of sedative and hypnotic effects compared with control mice without UV illumination. Photoadduction that missed the parabrachial-coerulean complex also failed to extend the sedative or hypnotic actions of aziPm and was indistinguishable from nonadducted controls. Paralleling the prolonged behavioral and EEG consequences of on targetin vivophotoadduction, we conducted electrophysiologic recordings in rostral pontine brain slices. Using neurons within the locus coeruleus to further highlight the cellular consequences of irreversible aziPm binding, we demonstrate transient slowing of spontaneous action potentials with a brief bath application of aziPm that becomes irreversible on photoadduction. Together, these findings suggest that photochemistry-based strategies are a viable new approach for probing CNS physiology and pathophysiology.SIGNIFICANCE STATEMENTPhotoaffinity ligands are drugs capable of light-induced irreversible binding, which have unexploited potential to identify the neuroanatomic sites of drug action. We systemically administer a centrally acting anesthetic photoaffinity ligand in mice, conduct localized photoillumination within the brain to covalently adduct the drug at itsin vivosites of action, and successfully enrich irreversible drug binding within a restricted 250 µm radius. When photoadduction encompassed the pontine parabrachial-coerulean complex, anesthetic sedation and hypnosis was prolonged 20-fold, thus illustrating the power ofin vivophotochemistry to help unravel neuronal mechanisms of drug action.
RNA‐mediated heterochromatin formation at repetitive elements in mammals
Authors: Stamidis Nikolaos , Żylicz Jan Jakub 
Published: February 2023

AbstractThe failure to repress transcription of repetitive genomic elements can lead to catastrophic genome instability and is associated with various human diseases. As such, multiple parallel mechanisms cooperate to ensure repression and heterochromatinization of these elements, especially during germline development and early embryogenesis. A vital question in the field is how specificity in establishing heterochromatin at repetitive elements is achieved. Apart fromtrans‐acting protein factors, recent evidence points to a role of different RNA species in targeting repressive histone marks and DNA methylation to these sites in mammals. Here, we review recent discoveries on this topic and predominantly focus on the role of RNA methylation, piRNAs, and other localized satellite RNAs.
Saturated fatty acids increase LPI to reduce FUNDC1 dimerization and stability and mitochondrial function
Authors: Chen Linbo , Zhang Qianping , Meng Yuanyuan , Zhao Tian , Mu Chenglong , Fu Changying , Deng Caijuan , Feng Jianyu , Du Siling , Liu Wei , Geng Guangfeng , Ma Kaili , Cheng Hongcheng , Liu Qiangqiang , Luo Qian , Zhang Jiaojiao , Du Zhanqiang , Cao Lin , Wang Hui , Liu Yong , Lin Jianping , Chen Guo , Liu Lei , Lam Sin Man , Shui Guanghou , Zhu Yushan , Chen Quan 
Published: February 2023

AbstractEctopic lipid deposition and mitochondrial dysfunction are common etiologies of obesity and metabolic disorders. Excessive dietary uptake of saturated fatty acids (SFAs) causes mitochondrial dysfunction and metabolic disorders, while unsaturated fatty acids (UFAs) counterbalance these detrimental effects. It remains elusive how SFAs and UFAs differentially signal toward mitochondria for mitochondrial performance. We report here that saturated dietary fatty acids such as palmitic acid (PA), but not unsaturated oleic acid (OA), increase lysophosphatidylinositol (LPI) production to impact on the stability of the mitophagy receptor FUNDC1 and on mitochondrial quality. Mechanistically, PA shifts FUNDC1 from dimer to monomer via enhanced production of LPI. Monomeric FUNDC1 shows increased acetylation at K104 due to dissociation of HDAC3 and increased interaction with Tip60. Acetylated FUNDC1 can be further ubiquitinated by MARCH5 for proteasomal degradation. Conversely, OA antagonizes PA‐induced accumulation of LPI, and FUNDC1 monomerization and degradation. A fructose‐, palmitate‐, and cholesterol‐enriched (FPC) diet also affects FUNDC1 dimerization and promotes its degradation in a non‐alcoholic steatohepatitis (NASH) mouse model. We thus uncover a signaling pathway that orchestrates lipid metabolism with mitochondrial quality.
Vibrio natriegens genome‐scale modeling reveals insights into halophilic adaptations and resource allocation
Authors: Coppens Lucas , Tschirhart Tanya , Leary Dagmar H , Colston Sophie M , Compton Jaimee R , Hervey William Judson , Dana Karl L , Vora Gary J , Bordel Sergio , Ledesma‐Amaro Rodrigo 
Published: February 2023

AbstractVibrio natriegens is a Gram‐negative bacterium with an exceptional growth rate that has the potential to become a standard biotechnological host for laboratory and industrial bioproduction. Despite this burgeoning interest, the current lack of organism‐specific qualitative and quantitative computational tools has hampered the community's ability to rationally engineer this bacterium. In this study, we present the first genome‐scale metabolic model (GSMM) of V. natriegens. The GSMM (iLC858) was developed using an automated draft assembly and extensive manual curation and was validated by comparing predicted yields, central metabolic fluxes, viable carbon substrates, and essential genes with empirical data. Mass spectrometry‐based proteomics data confirmed the translation of at least 76% of the enzyme‐encoding genes predicted to be expressed by the model during aerobic growth in a minimal medium. iLC858 was subsequently used to carry out a metabolic comparison between the model organism Escherichia coli and V. natriegens, leading to an analysis of the model architecture of V. natriegens' respiratory and ATP‐generating system and the discovery of a role for a sodium‐dependent oxaloacetate decarboxylase pump. The proteomics data were further used to investigate additional halophilic adaptations of V. natriegens. Finally, iLC858 was utilized to create a Resource Balance Analysis model to study the allocation of carbon resources. Taken together, the models presented provide useful computational tools to guide metabolic engineering efforts in V. natriegens.
25-hydroxyvitamin D level is associated with greater grip strength across adult life span: a population-based cohort study
Authors: Fox Fabienne A U , Koch Lennart , Breteler Monique M B , Ahmad Aziz N 
Published: February 2023

Objective
Maintaining muscle function throughout life is critical for healthy ageing. Although in vitro studies consistently indicate beneficial effects of 25-hydroxyvitamin D (25-OHD) on muscle function, findings from population-based studies remain inconclusive. We therefore aimed to examine the association between 25-OHD concentration and handgrip strength across a wide age range and assess potential modifying effects of age, sex and season.

Methods
We analysed cross-sectional baseline data of 2576 eligible participants out of the first 3000 participants (recruited from March 2016 to March 2019) of the Rhineland Study, a community-based cohort study in Bonn, Germany. Multivariate linear regression models were used to assess the relation between 25-OHD levels and grip strength while adjusting for age, sex, education, smoking, season, body mass index, physical activity levels, osteoporosis and vitamin D supplementation.

Results
Compared to participants with deficient 25-OHD levels (<30 nmol/L), grip strength was higher in those with inadequate (30 to <50 nmol/L) and adequate (≥50 to ≤125 nmol/L) levels (ßinadequate = 1.222, 95% CI: 0.377; 2.067, P = 0.005; ßadequate = 1.228, 95% CI: 0.437; 2.019, P = 0.002). Modelling on a continuous scale revealed grip strength to increase with higher 25-OHD levels up to ~100 nmol/L, after which the direction reversed (ßlinear = 0.505, 95% CI: 0.179; 0.830, P = 0.002; ßquadratic = –0.153, 95% CI: –0.269; -0.038, P = 0.009). Older adults showed weaker effects of 25-OHD levels on grip strength than younger adults (ß25OHDxAge = –0.309, 95% CI: –0.594; –0.024, P = 0.033).

Conclusions
Our findings highlight the importance of sufficient 25-OHD levels for optimal muscle function across the adult life span. However, vitamin D supplementation should be closely monitored to avoid detrimental effects.
Electrochemical detection of simple alkanes by utilizing a solid-state zirconia-based gas sensor
Authors: Kalyakin Anatoly S. , Volkov Alexander N. 
Published: February 2023

Solid-state gas sensors composed of complex oxide electrolytes offer great potential for analyzing various atmospheres at high temperatures. While relatively simple gas mixtures (H2O+N2, O2+N2) have been successfully studied by means of ZrO2-based sensors, the precise detection of more complex compounds represents a challenging task. In this work, we present our findings regarding the analysis of lower alkanes (CH4, C2H6, and C3H8) mixed with nitrogen as an inert gas, utilizing an amperometric ZrO2-based sensor. This sensor, serving as an electrochemical cell with a diffusion barrier, was tested at 500–600 °C to measure the limiting current, which depends on the gas composition and can be further used as a basis for calibration curves. In addition, the diffusion coefficients of the specified gas mixtures were successfully found and compared with references, confirming the applicability of the fabricated sensor for studying diffusion processes in wide concentration and temperature ranges.
INVESTIGATION OF THE EFFECT OF OLANZAPINE AND L-CARNITINE ON RAT TESTIS TISSUE
Authors: AKKUŞ Merve , KILIÇ Faruk , AŞCI Halil , CANKARA Fatma Nihan , SAVRAN Mehtap , ULUSOY KARATOPUK Dilek 
Published: February 2023

Objective
Olanzapine has adverse effects on sexual dysfunction.
There are a limited number of studies showing that it
also causes structural changes in the reproductive
system. This study aimed to examine the effects of
L-Carnitine on testicular damage caused by Olanzapine
in terms of histopathological, sperm parameters, and
biochemical aspects.
Material and Method
A total of 48 adult Sprague-Dawley male rats were
used in our study. Rats were divided into 6 groups,
8 rats in each group: the Control group (C), 200 mg/
kg L-Carnitine administered group (LC), 2 mg/kg low
dose Olanzapine administered group (LOZN), 2 mg/kg
Olanzapine, and 200 mg/kg L-Carnitine administered
group (LOZN+LC), 4 mg/kg Olanzapine administered
group (HOZN), 4 mg/kg Olanzapine and 200 mg/
kg L-Carnitine administered group (HOZN+LC).
Testicular tissues were used for the determination of
MDA, IL-1B, IL-6, TAS, TOS levels, and histological
evaluation.
Results
In the groups receiving Olanzapine, a decrease in
sperm count, an increase in MDA, IL-1β, TOS values,
and dose-dependent histopathological changes in
testicular tissue were observed. Histopathological
changes were found at a lower rate in the Olanzapine
and L-Carnitine administered groups compared to the
Olanzapine-only groups.
Conclusion
It was concluded that the degenerative histological
findings in the testicular structure observed in the
high-dose Olanzapine administered groups might be
caused by the oxidative stress induced by Olanzapine
in the testicular tissue. L-Carnitine, on the other hand,
was thought to be effective in reducing testicular
degeneration by reducing oxidative damage.
A Real-Time Seismic Intensity Prediction Framework Based on Interpretable Ensemble Learning
Authors: Hu Jinjun , Ding Yitian , Zhang Hui , Jin Chaoyue , Wang Zhongwei 
Published: February 2023

AbstractReal-time seismic intensity estimation aims to predict the maximum possible damage caused by an earthquake based on primary waves (P wave), so that the earthquake early warning (EEW) targets can take measures to reduce the potential damage according to the predicted seismic intensity. The peak P-wave displacement amplitude (Pd) is often used as an effective characteristic parameter to predict ground-motion peaks; however, it is difficult to accurately predict the complex nonlinearity between P wave and the peak ground motion using a single parameter. To address this problem, we propose a reliable and efficient real-time seismic intensity prediction framework by investigating and comparing the performance of multiple ensemble learning algorithms using the Kyoshin network (K-NET) dataset, with 52,560 sets of three-component records from 2010 to 2018 as training and test sets, and 9166 sets obtained from 2019 to 2021 as a case study. The proposed framework optimizes the ensemble learning models according to the correlation between characteristic parameters to eliminate redundant and irrelevant parameters. An optimal model with 14 characteristic parameters is determined. In addition, we apply interpretable approaches to explain the effects of different parameters on the results in response to the fact that the poor interpretation of machine learning methods leads to low credibility. We verify the efficiency and prove the generalizability of the model using case sets. The results show that the optimized model can predict the maximum intensity with an accuracy rate exceeding 95% within the 1 s time window after the arrival of P wave, and the accuracy stabilizes at more than 97% after 3 s. The framework established in this study can effectively and continuously predict seismic intensity and provide a potential method for EEW.