bluuebunny/crossref_metadata_2025_split huggingface dataset:
A novel synergistic enzyme-Antibiotic Therapy with Immobilization of Mycobacteriophage LysinB enzyme onto Rif@UiO-66 Nanocomposite for Enhanced Anti-TB Nanotherapeutic; Nanoenzybiotics approach
Authors: Eldin Zienab E. , Dishisha Tarek , Sayed Ossama M. , Salam Hanaa. M. , Farghali Ahmed. 
Published: August 2023

AbstractThe emergence of antibiotic-resistant and phage-resistant strains of Mycobacterium tuberculosis (M. tuberculosis) necessitates improving new therapeutic plans. The objective of the current work was to ensure the effectiveness of rifampin and the mycobacteriophage LysB D29 enzyme in the treatment of MDR-TB infection, where new and safe metal–organic framework (MOF) nanoparticles were used in combination. UiO-66 nanoparticles were synthesized under mild conditions in which the antimycobacterial agent (rifimpacin) was loaded (Rif@UiO-66) and LysB D29 enzyme immobilized onto Rif@UiO-66, which were further characterized. Subsequently, the antibacterial activity of different ratios of Rif@UiO-66 and LysB/Rif@uio-66 against the nonpathogenic tuberculosis model Mycobacterium smegmatis (M. smegmatis) was evaluated by minimum inhibitory concentration (MIC) tests. Impressively, the MIC of LysB/Rif@uio-66 was 16-fold lower than that of pure rifampicin. In vitro and in vivo toxicity studies proved that LysB/Rif@UiO-66 is a highly biocompatible therapy for pulmonary infection. A biodistribution assay showed that LysB/Rif@UiO-66 showed a 5.31-fold higher drug concentration in the lungs than free rifampicin. A synergistic interaction between UiO-66, rifampicin and the mycobacteriophage lysB D29 enzyme was shown in the computational method (docking). Therefore, all results indicated that the LysB/Rif@UiO-66 nanocomposite exhibited promising innovative enzyme-antibiotic therapy for tuberculosis treatment.
Analysis and validation of critical signatures and immune cell infiltration characteristics in doxorubicin-induced cardiotoxicity by integrating bioinformatics and machine learning
Authors: Huang Chao , Pei Jixiang , Li Daisong , Liu Tao , Li Zhaoqing , Zhang Guoliang , Chen Ruolan , Xu Xiaojian , Li Bing , Lian Zhexun , Chu Xian-Ming 
Published: August 2023

Abstract

Doxorubicin-induced cardiotoxicity (DIC) is a severe side reaction in cancer chemotherapy that greatly impacts the well-being of cancer patients. Currently, there is still an insufficiency of effective and reliable biomarkers in the field of clinical practice for the early detection of doxorubicin-induced cardiotoxicity. We obtained high-throughput sequencing data from the Gene Expression Omnibus (GEO) database and performed data analysis and visualization using R software, GO, KEGG and Cytoscape. Machine learning methods and weighted gene coexpression network (WGCNA) were used to identify key genes for diagnostic model construction. Receiver operating characteristic (ROC) analysis and a nomogram were used to assess their diagnostic values. A multiregulatory network was built to reveal the possible regulatory relationships of critical signatures. Cell-cype identification by estimating relative subsets of RNA transcript (CIBERSORT) analysis was used to investigate differential immune cell infiltration. Additionally, a doxorubicin-induced cardiotoxicity cell model was constructed to investigate the relationship between the identified genes and doxorubicin-induced cardiotoxicity. Finally, among the 3713 differentially expressed genes, three hub genes ( CSGALNACT1, ZNF296 and FANCB) were identified. A nomogram and ROC curves based on three hub genes showed excellent diagnostic predictive performance. The regulatory network analysis showed that the TFs CREB1, EP300, FLI1, FOXA1, MAX, and MAZ modulated CSGALNACT1, ZNF296 and FANCB. An analysis of immune cell infiltration indicated that many immune cells (activated NK cells, M0 macrophages, activated dendritic cells and neutrophils) might be related to the progression of DOX-induced cardiotoxicity. Furthermore, there may be various degrees of correlation between the three critical signatures and immune cells. RT‒qPCR in vitro demonstrated that the mRNA expression of CSGALNACT1 and ZNF296 was significantly upregulated, while FANCB was significantly downregulated in doxorubicin-treated cardiomyocytes. Our results suggested that the differential expression of CSGALNACT1, ZNF296 and FANCB is associated with cardiotoxicity and is involved in immune cell infiltration in doxorubicin-induced cardiotoxicity. They might be potential biomarkers for the early occurrence of doxorubicin-induced cardiotoxicity.
Diallyl trisulfide causes male infertility with oligoasthenoteratospermia in Sitotroga cerealella through the ubiquitin proteasome pathway
Authors: Shah Sakhawat , Elgizawy Karam Khamis , Wu Meng-Ya , Yao Hucheng , Yan Wen-Han , Li Yu , Wang Xiao-Ping , Wu Gang , Yang Feng-Lian 
Published: August 2023

Abstract
Essential oil extracted from plant sources along with their biologically active components may have negative effects on insect. Diallyl trisulfide (DAT) is an active component of garlic essential oil, and it exhibits multi-targeted activity against many organisms. It has been observed that DAT induces male infertility and leads to dimorphic sperm disruption in Sitotroga cerealella. In this study, we conducted an analysis of testis-specific RNA-Seq data and identified 449 downregulated genes and 60 upregulated genes in the DAT group compared to the control group. The downregulated genes were significantly enriched in the ubiquitin-proteasome pathway. Furthermore, DAT caused a significant reduction in mRNA expression of proteasome regulatory subunit particles required for ATP-dependent degradation of ubiquitinated proteins as well as decreased the expression profile of proteasome core particles, including β1, β2, and β5. Sperm physiological analysis showed that DAT potently inhibited the chymotrypsin-like activity of the 20S proteasome and formed aggresomes in spermatozoa. Computational docking analysis revealed that DAT bound to the active sites of proteasome β1, β2, and β5 subunits, resulting in reversible inhibition. Overall, our findings demonstrate that DAT functions as an inhibitor of the testis-specific proteasome, ultimately causing male infertility characterized by oligoasthenoteratospermia due to disruption in sperm proteasome assembly in S. cerealella.
Right Ventricular Dysfunction, the new Face of Long COVID-19, Assessed by Speckle-Tracking Echocardiography
Authors: Abtahi Firoozeh , Ayoobikashkooli Yasin , Mohammadian Seyedeh Fatemeh , Hassani Amir Hossein 
Published: August 2023

Abstract
Purpose:
after the COVID-19 pandemic has been resolved, the world is encountered with long-term effects of this disease that is now called long-COVID-19. In this study, we aimed to assess the effects of previous severe COVID-19 on right ventricular (RV) function.
Methods and Materials:
in this study, previously healthy patients who were admitted in intensive care units due to COVID-19 in a one-year period were evaluated using speckle-tracking echocardiography after one year of their resolution. The echocardiographic parameters of the RV were reported and assessed based on the COVID-19 treatment and baseline condition of the patients.
Results:
Eighty-two patients with a mean age of 46.54±12.098 years old entered the study of whom 46 (56.1%) were male. Based on RV free wall longitudinal strain, RV global longitudinal strain, and RV fractional area change 8 (9.8%), 10 (12.2%), and 10 (12.2%) patients had RV dysfunction in a period of at least six months following their discharge. Nevertheless, 33.3% of the patients had at least one determinant of RV dysfunction. We found that the patients who needed anticoagulants and vasopressors were more likely to develop RV dysfunction. Also, the patients’ condition, especially respiratory rate on admission was a better predictor of future RV dysfunction compared to lab data.
Conclusion:
COVID-19 can induce subclinical and clinical RV dysfunction persisting for as long as a year after the resolution of infection. Since this abnormality can increase cardiovascular mortality, screening of patients who had been hospitalized due to COVID-19 for RV dysfunction might not be unreasonable.
Efficient Docker Image Optimization using Multi-Stage Builds and Nginx for Enhanced Application Deployment
Authors: Badisa Naveen , Grandhi Jayanth Krishna , Kallam Lasya , Eda Mokshita Reddy , nulaka Srinivasu , Bulla Suneetha 
Published: August 2023

Abstract
As virtualization and EC2 instances have been widely used for running servers. However, they often consume significant resources due to their large size. The introduction of Docker as a containerization concept has revolutionized the way applications are deployed. Docker provides pre-installed environments packaged into images, allowing users to easily pull and run containers without the need for extensive local system configurations or dependency installations. One of the key advantages of Docker is its ability to optimize image sizes, which directly impacts resource utilization, deployment speed and overall efficiency. This research paper focuses on Docker image size optimization, specifically using the Angular framework as an example. Several techniques are explored including "Being lazy couch potatoes," which involves eliminating unnecessary dependencies, optimizing the parent image, and utilizing multi-stage builds. Additionally, the integration of Nginx as a reverse proxy is investigated to enhance application performance. The objective of this research is to evaluate these techniques and determine which approach effectively reduces Docker image size.
Evaluation of KLF4 Gene and Long Non-coding RNA MIR503HG Expression in Breast Cancer Patients in Iran
Authors: Eshaghi Shohreh , Hamta Ahmad , Azadeh Mansoureh 
Published: August 2023

Abstract
Introduction: Breast cancer is the most common cancer among women and its mortality rate is high. Therefore, it is necessary to study the genes involved in cancer in order to better understand the molecular mechanism of this disease. Since gene expression and its regulation process in tumor tissues are different from normal tissues, therefore the purpose of this research is to investigate the expression level of lncRNA MIR503HG and KLF4 gene in breast cancer samples and also the possibility of using them as biomarkers were investigated. Also bioinformatically, the interaction of MIR503HG and KLF4 was investigated. Material and methods: In order to investigate about the changes in expression of LncRNA MIR503HG and KLF4 gene in 23 samples of breast tumor tissue and 23 samples of healthy adjacent tissue, first total RNA was extracted from the samples and then cDNA synthesis was performed. Finally, the Real-time PCR technique was used. The LncRRIsearch web server was used to investigate the interaction between MIR503HG and KLF4. Results: It was shown that the expression of KLF4 gene in breast tumor tissues is significantly reduced compared to healthy adjacent tissue (p-value = 0.0068). Expression of MIR503HG in breast tumor tissues is significantly increased compared to adjacent healthy tissue (Pvalue = 0.0075). Also, in examining the biomarker potential of KLF4 and MIR503HG genes, both were included in the category of acceptable biomarkers (AUC = 0.7). It was also bioinformatically predicted that the KLF4 gene and LncRNA MIR503HG interact.
Phytohormones mediated antifungal resistance against Fusarium oxysporum
Authors: Duhan Lucky , Manoharlal Raman , Kumar Deepak , Kumari Deepika , Saini Mamta , Saiprasad G.V.S. , Chhillar Anil K. , Pasrija Ritu 
Published: August 2023

Abstract
This study aims to evaluate the in-vitro, as well as in-vivo antifungal activities of different phytohormones (PHs) against the hemibiotrophic fungus, Fusarium oxysporum using black gram [Vigna mungo (L.) Hepper] as a model system. The potential antifungal activities were tested using PHs, viz salicylic acid (SA), methyl jasmonate (MeJA), melatonin (MT), brassinolide (BL), indole-3-acetic acid (IAA), gibberellic acid (GA3), ethephon (ET) and abscisic acid (ABA), by determining the minimum inhibitory concentration (MIC) and minimum effective concentration (MEC) end-point in a microtiter plate-based assay. The results suggested significant antifungal activity for all the tested PHs, wherein SA and MeJA showed potency even at the lowest concentration tested, with corresponding MIC values of 0.312 mM and 0.625 mM, respectively. Likewise, a similar MEC profile was also observed for both SA and MeJA, with a corresponding value of 0.078 mM and 0.312 mM, respectively. The microtiter results were corroborated using spore germination and mycelial susceptibility assays. The microtiter results were corroborated using spore germination and mycelial susceptibility assays. The in-vivo antifungal efficacy of PHs was assessed by recording the germination characteristics in SA and MeJA primed V. mungo seeds, already exposed to F. oxysporum spores. The PHs primed seeds displayed a characteristic longer seedling length and higher seed vigour index (SVI), concomitant with relatively enhanced ROS scavenging activity. The priming of V. mungo seeds with SA and MeJA seems to induce a defense mechanism against F. oxysporum infection, which improved germination characteristics.
Defect Detection and Classification on Hot-Rolled Steel Using Machine Learning and Deep Learning Algorithms: A Comparative Analysis
Authors: Otieno Stanley , Kotak Nishith , Parmar Chandrasinh 
Published: August 2023

Abstract
Elevated concerns regarding sustainable manufacturing have resulted in increased efforts to deploy data-driven methodologies incorporating automated systems for fault analysis. In particular, manufacturing is increasingly focused on creating systems that detect and categorize defects, facilitating root-cause investigations. This research paper delves into the use of machine learning (ML) and deep learning (DL) approaches for defect detection in hot-rolled steel, focusing on examining the robustness of the different defect detection techniques. In the case of ML approaches, three primary feature extraction techniques: local binary pattern (LBP), histogram of oriented gradients (HOG), and gray-level co-occurrence matrix (GLCM), were employed. Generally, GLCM demonstrated relatively good performance, i.e., attained precision, recall, and f1-score values of 0.91 with a support vector machine (SVM) classifier. Similarly, using SVM, LBP attains precision, recall, and f1-score values of 0.89. Deep-learning methodologies such as convolutional neural networks (CNN), CNN plus VGG19 (CNN + VGG19), and you only look once version 7 (YOLOv7) were employed to investigate and classify the hot-rolled steel defects. CNN + VGG-19 and YOLOv7 exhibited excellent defect detection performance, attaining accuracy values of 0.9639 and 0.915, respectively. Overall, the results demonstrated relatively higher performance can be derived from using deep learning approaches such as CNN + VGG19 compared to traditional machine learning approaches.
Exploratory laparotomy diagnostic and management mainstay in a case of huge ovarian cyst torsion on late post postpartum period, at resource limited set up of leku general hospital,sidama,Ethiopia, case report
Authors: Kibret Asfaw , Bayu Efrem 
Published: August 2023

Abstract
Background
Huge ovarian cyst is a rare occurrence in postpartum period. Once existing ovarian cyst passes the pregnancy period, it is a risk for torsion postpartum when the gravid uterus involuted.Here we present a case of huge ovarian cyst torsion on late post partum period which is diagnosed and managed in our resource limited set up.
Case presentation
:this is a case of 30yrs old female patient who is on her 30th post partum date after she gave an alive fetus at home. Then she noticed that her abdomen failed to decrease after delivery and waited for spontaneous decrement and lastly she visited health center for the newly developing worsened pain since last 3 days of her presentation to health center.
Conclusion
This case reports that huge ovarian cyst accompanied pregnancy might not affect the pregnancy and vaginal delivery is possible but torsion is common in this case due to the involution of the post partal uterus. Exploratory laparatomy in low resource set up is still the main stay for diagnosis and management of such emergency cases.
Water poverty in Western Nepal: assessment of Alital Rural Municipality in Rangun watershed
Authors: Tiwari Sushma , Adhikari Sanot , Khadka Udhab Raj , Ghimire Motilal , Talchabhadel Rocky 
Published: August 2023

Abstract

Water poverty is an emerging issue in Nepal. Several factors, including population growth, climate change, land-use transitions, and poorly planned road construction, significantly impact water quality and quantity. Water poverty in Alital Rural Municipality, Dadeldhura, in Rangun Watershed is examined in this study. Elements of the water poverty index (WPI) were used – (i) access, (ii) resource, (iii) use, (iv) capacity, and (v) environment. The WPI was determined as 57, indicating a medium-low level of water poverty. The WPI for the various wards, the smallest administrative units, ranged from 54 to 64. The environment component yielded the highest score, the use component the lowest. Water use for household and agricultural purposes was negligible compared to other uses. Effective water management plans are essential for increasing household water use and consumption in the watershed. The WPI can be used as an integrated tool for water resource management at various scales, from local to national, by linking all environmental factors to identify and prioritize the areas that require immediate management interventions for integrated, multi-disciplinary, and sustainable water resource management.
Elucidating the Mechanism of Buyanghuanwu Decoction Acting on
Pulmonary Fibrosis Based on Network Pharmacology and Animal Studies
Authors: Xing Qichang , Liu Xiang , Liu Zheng , Yan Qingzi , Hu Yixiang , Li Wencan , Peng Ke 
Published: August 2023

Background and Objective:
Buyanghuanwu Decoction (BYHWD) is a clinically proven
prescription effective in treating pulmonary fibrosis (PF), but the molecular mechanism underlying
its action remains unclear. The network pharmacology analysis was performed to elucidate the acting
substances and related pathways of BYHWD in treating bleomycin (BLM) induced PF mouse.

Methods:
First, the pharmacologically active components and corresponding targets in BYHWD
were identified through the TCMSP database and literature review. Second, PF-related targets were
identified through the DisGeNet database. Then, the components-targets network of BYHWD in
PF treatment was constructed using Cytoscape. The DAVID database was used for the enrichment
analysis of GO terms and KEGG pathways. At last, the therapeutic effect of BYHWD on BLMinduced
PF mice were verified, and the mRNA and protein expression of related targets was
determined through RT-PCR and western blotting, respectively.

Results:
The core component-target network contained 58 active components and 147 targets.
Thirty-nine core targets were mainly involved in the regulation of biological functions and KEGG
pathways, such as the positive regulation of nitric oxide biosynthesis and the TNF signaling pathway.
These core targets were obtained through enrichment analysis. Moreover, animal studies
revealed that BYHWD down-regulated the mRNA expression levels of TNF, IL-6, IL-1β, and
NOS2 and inhibited NF-κB and p38 phosphorylation.

Conclusion:
The effects of BYHWD on PF mice are therapeutic, and its anti-PF mechanism mainly
involves the effects on inflammatory factors and the NF-κB/p38 pathway.
Chlorogenic Acid Derivatives: Structural Modifications, Drug Design, and
Biological Activities: A Review
Authors: Joneidi Shima , Alizadeh Seyedeh Roya , Ebrahimzadeh Mohammad Ali 
Published: August 2023

Background:
Phenolic acids have recently gained considerable attention because of their
numerous practical, biological, and pharmacological benefits. Various polyphenolic compounds are
widely distributed in plant sources. Flavonoids and phenolic acids are the two main polyphenolic
compounds that many plants contain abundant polyphenols. Chlorogenic acid, one of the most abundant
phenolic acids, has various biological activities, but it is chemically unstable and degrades into
other compounds or different enzymatic processes.

Methods:
In this review, we have studied many publications about CA and its derivatives. CA derivatives
were classified into three categories in terms of structure and determined each part’s effects on
the body. The biological evaluations, structure-activity relationship, and mechanism of action of CA
derivatives were investigated. The search databases for this review were ScienceDirect, Scopus, Pub-
Med and google scholar.

Results:
Many studies have reported that CA derivatives have demonstrated several biological effects,
including anti-oxidant, anti-inflammatory, anti-microbes, anti-mutation, anti-carcinogenic, anti-viral,
anti-hypercholesterolemia, anti-hypertensive, anti-bacterial, and hypoglycemic actions. The synthesis
of new stable CA derivatives can enhance its metabolic stability and biological activity.

Conclusion:
The present study represented different synthetic methods and biological activities of CA
derivatives. These compounds showed high antioxidant activity across a wide range of biological effects.
Our goal was to help other researchers design and develop stable analogs of CA for the improvement
of its metabolic stability and the promotion of its biological activity.
Smoking, Coffee Consumption, Alcohol Intake, and Obstructive Sleep Apnea:
A Mendelian Randomization Study
Authors: Yang Yinghao , Wu Jinghao , Li Shanshan , Yu Wenkai , Zhu Hanghang , Wang Yunchao , Li Yusheng 
Published: August 2023

Background:
Previous studies revealed that obstructive sleep apnea (OSA) and smoking,
alcohol consumption, and coffee intake are closely related. This study aimed to evaluate the
causal effect between these factors and OSA.

Methods:
The published genome-wide association study data (GWAS) provided genetic tools. We
conducted a univariable two-sample Mendelian Randomization (MR) to estimate the causal effect
between smoking initiation, never smoking, alcohol consumption, coffee intake, and coffee consumption
with the risk of incidence OSA. Inverse variance weighting (IVW) was used as the main
method for effect evaluation, and other MR methods were used for sensitivity analysis. After adjusting
for body mass index (BMI), hypertension, and diabetes respectively by multivariable MR
(MVMR), we further evaluate the causal effect of these factors on OSA.

Results:
Under univariable MR analysis, we observed that smoking initiation was associated with
an increased risk of incidence OSA (OR 1.326, 95% CI 1.001-1.757, p =0.049). Never smoking
was associated with decreased risk of OSA (OR 0.872, 95% CI 0.807-0.942, p <0.001). Coffee
intake and coffee consumption was associated with an increased incidence of OSA (OR 1.405,
95% CI 1.065-1.854, p =0.016) and (OR 1.330, 95% CI 1.013-1.746, p =0.040). Further multivariate
MR showed that the causal relationship between never smoking and OSA existed but not coffee
consumption, after adjusting for diabetes and hypertension. However, the all results did not
support causality after adjusting for BMI.

Conclusion:
This two-sample MR study showed that genetically predicted smoking and higher
coffee intake are causally associated with an increased risk of OSA.