bluuebunny/crossref_metadata_2025_split huggingface dataset:
Candidate biomarkers from the integration of methylation and gene expression in discordant autistic sibling pairs
Authors: Domenici Enrico , Perini Samuel , Michele Filosi 
Published: November 2022

Abstract
While the genetics of autism spectrum disorders (ASD) has been intensively studied, resulting in the identification of over 100 putative risk genes, the epigenetics of ASD has received less attention, and results have been inconsistent across studies. We aimed to investigate the contribution of DNA methylation (DNAm) to the risk of ASD and identify candidate biomarkers arising from the interaction of epigenetic mechanisms with genotype, gene expression, and cellular proportions. We performed DNAm differential analysis using whole blood samples from 75 discordant sibling pairs of the Italian Autism Network collection and estimated their cellular composition. We studied the correlation between DNAm and gene expression accounting for the potential effects of different genotypes on DNAm. We showed that the proportion of NK cells was significantly reduced in ASD siblings suggesting an imbalance in their immune system. We identified differentially methylated regions (DMRs) involved in neurogenesis and synaptic organization. Among candidate loci for ASD, we detected a DMR mapping to CLEC11A (neighboring SHANK1) where DNAm and gene expression were significantly and negatively correlated, independently from genotype effects. As reported in previous studies, we confirmed the involvement of immune functions in the pathophysiology of ASD. Notwithstanding the complexity of the disorder, suitable biomarkers such as CLEC11A and its neighbor SHANK1 can be discovered using integrative analyses even with peripheral tissues.
The Neonatal Withdrawal Assessment Tool (NWAT): Pilot inter-rater reliability and content validity
Authors: Betkas Gonca , Soderborg Taylor , Slater Cheryl , Agarwal Joel , Racioppi Michelle , Hogan Trystan , Werler Martha , Wachman Elisha 
Published: November 2022

Abstract
OBJECTIVE: There is no validated tool to assess withdrawal in preterm infants in the newborn intensive care unit (NICU) being weaned from pharmacological sedation.
STUDY DESIGN: The Neonatal Withdrawal Assessment Tool (NWAT) was developed to address this gap in clinical practice. In this pilot study, the NWAT was assessed for inter-rater reliability (IRR) and content validity.
RESULT: Fifty-one NICU providers scored two standardized simulated cases, then 20 paired provider assessments were completed on 5 preterm infants. The overall IRR was 95.6% on the simulated cases, and 98.8% on the 5 pilot infants. A provider survey assessed for content validity; more than 85% of provider participants strongly agreed/agreed that the NWAT adequately measures withdrawal in critically ill infants.
CONCLUSION: The NWAT demonstrated high IRR and content validity for assessment of withdrawal in preterm infants. Further studies in a larger more diverse patient population are needed before wider adoption into clinical practice.
Increased copy number of 23S ribosomal RNA gene with point mutation in MRSA associated with linezolid resistance in a patient treated with long-term linezolid
Authors: Suzuki Katsunori , Saito Mitsumasa , Hanaki Hideaki 
Published: November 2022

Abstract
Background
Methicillin-resistant Staphylococcus aureus (MRSA) infection is one of the most difficult infections we have to treat. Linezolid is one of the effective treatment options for refractory MRSA infections. There are cases where we are forced to use long-term linezolid treatment for refractory MRSA infections.
Objective
To discuss the evolution of Linezolid resistance factors in clinical isolates of MRSA.
Methods
We investigated 16 MRSA isolated from a patient treated with linezolid for a long period of 75 days. We performed antibiotic susceptibility test, 23S rRNA genes sequencing analysis, Pulsed-field gel electrophoresis.
Results
MRSA isolates were susceptible to linezolid before the start of treatment, but became less susceptible by prolonged treatment. The 23S rRNA sequencing analysis of linezolid-resistant strains that appeared 17 days after the start of treatment with linezolid revealed that all resistant MRSA had the G2576T substitution (Escherichia coli 23S rRNA gene number). The number of copies of this mutation increased with the use of linezolid.
Conclusion
Long-term use of linezolid in a patient or reuse of linezolid in a patient who has been previously treated with linezolid can lead to the emerging of linezolid-resistant MRSA in the host.
Pathological study of sternal osteomyelitis after median thoracotomy – A prospective cohort study
Authors: Bota Olimpiu , Pablik Jessica , Taqatqeh Feras , Mülhausen Maxime , Matschke Klaus , Dragu Adrian , Rasche Stefan , Bienger Kevin 
Published: November 2022

Abstract
Purpose
Osteomyelitis of the sternum may arise either as a primary condition or secondary to median thoracotomy after cardiac surgery, with the latter being decidedly more frequent. Deep sternal wound infections appear as a complication of median thoracotomy in 0.2 to 4.4% of cases and may encompass the infection of the sternal bone. To date there are no exhaustive histopathological studies of the sternal osteomyelitis.
Methods
Our work group developed a surgical technique to remove the complete infected sternal bone in deep sternal wound infections. We therefore prospectively examined the en bloc resected sternal specimens. Seven standard histological sections were made from the two hemisternums.
Results
Forty-seven sternums could be investigated. The average age of the patients in the cohort was 67 (45–81) years and there were 10 females and 37 males. Two methods were developed to examine the histological findings, with one model examining dividing the results in inflammatory and non-inflammatory, while the second method using a score from 0 to 5 to describe more precisely the intensity of the bone inflammation. The results showed the presence of inflammation in 76.6–93.6% of the specimens, depending on the section. The left manubrial sections were more prone to inflammation, especially when the left mammary artery was harvested (LIMA). No further risk factors proved to have a statistical significance.
Conclusion
Our study proved that the deep sternal wound infection may cause a ubiquitous inflammation of the sternal bone, which justifies the complete sternectomy. The harvest of the left mammary artery may worsen the extent and intensity of infection.
Synthesis of biogenic silver nanoparticles (bAgNPs) using leaf extract of Mirabilis jalapa and evaluation of anti-vibriocidal, anti-oxidant properties and cytotoxicity
Authors: Pangi Vijaya Nirmala , Marukurti Abhinash , Reddy Alavala Matta , Medapalli Silpa Rani 
Published: November 2022

Abstract
Acute hepatopancreatic necrosis disease and luminescent vibriosis are two major bacterial diseases of penaeid shrimp which are caused by gram negative pathogenic bacteria Vibrio parahaemolyticus (Vp) and Vibrio harveyi (Vh) respectively. These diseases cause massive mortality and huge economic loss worldwide in shrimp aquaculture. Extensive and inappropriate usage of antibiotics against these pathogens resulted in antibiotic resistant strains. Drug repurposing appears to be an appropriate solution to eliminate the antibiotic resistance in pathogens. In the present study, biogenic silver nanoparticles (bAgNPs) are synthesized by reducing AgNO3 using aqueous extract of Mirabilis jalapa (MJ) leaves. The anti-oxidant, cytotoxic and anti-vibriocidal activity of bAgNPs against Vp and Vh are evaluated. The formation of silver nanoparticles was confirmed by the appearance of dark brown colored solution and with a maximum absorption peak at 434nm. The characterization of bAgNPs using FESEM, TEM, XRD, FTIR, and DLS has confirmed that the nanoparticles are crystalline, spherical in shape with an approximate diameter of 50nm, and have capping agents. The diameter of microbial growth inhibition zones for Vp and Vh are 26mm and 23mm respectively. Further, the MIC values for Vp and Vh are 31.25µg/mL and 93.75µg/mL respectively. The DPPH and FRAP assays showed substantial anti-oxidant activity with IC50 values of 67.39µg/mL and 5.509µg/mL respectively. MTT assay to check cytotoxicity effect of bAgNPs on Vero cells resulted very less toxicity at maximum concentration tested with an IC50 value of 293.5µg/mL. Therefore, the biogenic silver nanoparticles synthesized from leaves of MJ showed effective anti-vibriocidal and anti-oxidant properties with negligible cytotoxic effect.
Longitudinal trajectories of sleep quality in correlation with child maltreatment: a cohort of early adolescents
Authors: Cao Leilei , Wang Shaojie , Li Yuan , Li Yonghan , Yuan Mengyuan , Chang Junjie , Wang Gengfu , Su Puyu 
Published: November 2022

Abstract
Child maltreatment may lead to sleep disturbance during the critical period of child development. Our study examined the effect of child maltreatment on trajectories of sleep quality among early adolescents. A total of 1611 participants (mean ± standard deviation: 12.5 ± 0.5 years age at baseline) were enrolled from a middle school in southeastern China. 60.5% of the study participants were males. We collected information on child maltreatment and sleep quality using a self-reporting questionnaire. A group-based trajectory model was used to study trajectories of sleep quality. The four trajectories of sleep quality identified were as follows: low sleep score group (25.0%), moderate-low sleep score group (51.0%), moderate-increasing sleep score (17.0%), and high-decreasing sleep score (7.0%) group. After adjusting for covariates, the results revealed that emotional and physical abuse could increase the risk of developing new-onset sleep disturbances in early adolescents. Emotional abuse [incidence rate ratio (IRR) = 1.90, 95% CI: 1.19–3.03] and physical abuse (IRR = 2.03, 95% CI:1.11–3.70) significantly increased the risk of categorizing in the high-decreasing sleep score group. Additionally, the participants who experienced cumulative child maltreatment had a significant increased risk of developing new-onset sleep disturbances and were categorized in the high-decreasing sleep score group. Our results highlight the importance of preventing and reducing child maltreatment to improve sleep quality in early adolescence.
Identification and Validation of Key m7G-Related Genes and Cuproptosis-Related Genes Related to Immunity in Polycystic Ovary Syndrome (PCOS) by Comprehensive Bioinformatics Analysis
Authors: Yuemeng Zhao , Su Yang , Liu Liying , Yu Zheng , Yang Han , Zheng Xiaoyan , Hao Jianheng , Yang Jie , Ji Laixi 
Published: November 2022

Abstract
Background
Polycystic ovary syndrome (PCOS) is a complex endocrine disease that is one of the most common disease of reproductive age and is one of the important factors leading to infertility in young women, but the potential molecular mechanism remains unclear. In this study, we identified previously unrecognized m7G-related and cuproptosis-related genes that are significantly correlated with PCOS via bioinformatics.
Materials and methods
Three transcriptome profiles of granulosa cells of PCOS sample and normal samples were obtained from online databases. Comprehensive bioinformatic analyses, such as differential expression analysis, functional and pathway enrichment analysis, immune infiltration analysis, were utilized.
Results
Three PCOS datasets (GSE34526, GSE80432, and GSE137684) from the Gene Expression Omnibus (GEO) database were integrated and the background correction and normalization were performed by R language. The corrected gene cuproptosis-related genes and m7G-related genes respectively to obtain intersection genes. There were 12 intersection genes relate to cuproptosis-related genes and 21 intersection genes relate to m7G-related genes in comparison between PCOS group and normal group. After the correction gene crossed with the immune infiltrating gene, it crossed with 12 intersection genes relate to cuproptosis-related genes and 21 intersection genes relate to m7G-related genes respectively. Ultimately, it was identified that 8 genes related to cuproptosis are related to immune infiltration (CIGs), among which DLAT was the most significant (P = 0.049); 5 m7G related genes are associated with immune infiltration (MIGs), among which NUDT16 was the most significant (P = 0.0246). There were significant differences in clinicopathological characteristics between the PCOS group and the normal group by ROC curve analysis.
Conclusions
This study addresses the information gap in PCOS research about the interaction between immunology, m7G, and copper metabolism. According to the PCOS prediction model, the genes m7G and those associated to copper metabolism are crucial in the onset and progression of the condition. This study has further explored the microenvironment of ovarian granulosa cell of PCOS development and immune factor related genes. This work will support future research.
Correlation between immune-related adverse events and long-terms outcome in pembrolizumab-treated patients with unresectable hepatocellular carcinoma: a retrospective study
Authors: Zhou Jiangmin , Zhang Zhiwei , Wu Biao 
Published: November 2022

Abstract
Background
Although immune checkpoint inhibitors (ICIs) therapy has improved the prognosis of unresectable hepatocellular carcinoma (HCC), it has also resulted in the unique immune-related adverse events (irAE). The relationship between irAE and treatment outcomes in ICIs-treated advanced HCC patients remains unknown.
Methods
From March 2019 to February 2021, a total of 190 unresectable HCC (BCLC C) patients receiving Pembrolizumab treatment were retrospectively reviewed. Overall survival (OS) was the primary endpoint. objective response rate (ORR), disease control rate (DCR) and time to progression (TTP) were secondary evaluation indexes. We assessed demographics, irAE and outcomes by retrospective review.
Results
One hundred and forty-three male and 47 female were included in the study. The ORR and DCR were 12.1% (23/190) and 52.1% (99/190) respectively. The median OS was 376 days (95% CI 340 -411 days) and the median TTP was 98 days (95% CI 75 -124 days). The overall incidence of treatment-related adverse events was 72.6% (138/190) and 10.0% of them were severe irAEs (grade ≥ 3). Child-Pugh B class, PVTT, extrahepatic metastasis, and hypothyroidism were the independent risk factors of survival. Patients with hypothyroidism were observed a longer OS than those without irAE (517 days [95% CI 423-562] vs. 431 days, [95% CI 412-485], P=0.011) and a longer TTP (125 [95% CI 89-154] vs. 87 days [95% CI 61-98], P=0.004).
Conclusion
Unresectable HCC patients experienced hypothyroidism indicated a bettertherapeutic effect.Hypothyroidism, an immune-related adverse event may be used as a clinical evaluation parameter of HCC response to ICIs.
Association between Admission Serum Albumin and 12-weeks Mortality in AIDS/HIV Late Diagnosis Patients in Hospital: A Retrospective Cohort Study
Authors: Huang Rui , Shi Yixian , Wang Jinxiu , Zhao Fang , Huang Jin , Wu Lingting , Han Lifen 
Published: November 2022

Abstract
Background:
Many patients with human immunodeficiency virus (HIV)/acquired immunodeficiency syndrome (AIDS) are still undiagnosed or diagnosed late, which leads to serious consequences and burdens. Low serum albumin levels are significantly correlated with disease prognosis. This study investigated the association between serum albumin concentration and 12-week mortality of HIV/AIDS with late diagnosis in mainland China.
Methods:
In this single-center retrospective cohort study, 1,079 inpatients with late HIV/AIDS diagnosis between January 2018 and December 2021 were included. The strata of serum albumin levels were categorized into tertiles. Disease progression was estimated using the 12-week mortality. Cox proportional hazards regression models were used to evaluate the serum albumin concentration with disease progression. The Kaplan–Meier method was used to analyze the effect of different serum albumin levels on mortality.
Results:
During the 12-week follow-up, 77 patients (7.1%) died. Serum albumin concentration was significantly correlated with late HIV/AIDS diagnosis progression. In Cox proportional hazards regression models, the mortality risk decreased by 8% with the increase in every 1g/L serum albumin after adjustment (hazard ratio [HR] = 0.92, 95% confidence interval [CI]: 0.88–0.97). Compared with that of the low serum albumin group (< 28 g/L), the middle group (28–33 g/L) mortality risk decreased by 70% (HR = 0.30, 95% CI: 0.16–0.60), and that of the high group (≥ 34 g/L) decreased by 45% (HR = 0.55, 95% CI: 0.27–1.15) after adjustment.
Conclusions: Hospitalized patients with late HIV/AIDS diagnosis and low serum albumin concentrations in mainland China had a relatively high short-term mortality rate. Further research is needed to characterize the role of serum albumin in the timely prevention of 12-week mortality in patients with a late diagnosis.
Effects of different levels of spent engine oil on soil physicochemical properties using different texturally contrasting soils.
Authors: Chukwu Esther Chidinma , Azuka Chukwuebuka Vincent , Okorie Benedict Odinaka 
Published: November 2022

Abstract
Three texturally contrasting soils: Sandy loam (SL), Loamy sand (LS) and Sandy clay loam (SCL) were potted 4 kg each with a polythene bag and polluted with 10% w/w (122ml/kg), 20% w/w (245ml/kg) and 0% w/w (0ml/kg) of spent engine oil. The soil was thoroughly mixed with spent engine oil and allowed to stay for three weeks to allow for proper absorption of the engine oil. Thereafter, air-dried crushed and sieved poultry manure was applied to the soil in each polythene bag at a rate of 40 t/ha. The spent engine oil-soil-organic manure mixture was watered to field capacity 3 times per week for two weeks after which the seeds of sunflower was sown. Soil samples were collected and analyzed at the end of the study which lasted for 12 weeks. Spent engine oil affects soil physicochemical properties as the bulk density, aggregate stability, state of aggregation, mean weigh diameter, phosphorus, Nitrogen, organic matter and pH both in water and KCl increases with increase in pollution rates while the cation exchange capacity, hydraulic conductivity, total porosity and microporosity decreases with increase in pollution rate. The physicochemical properties varies across the different soil types but loamy sand soil recorded a favourable parameters that will enable plant growth compared to other soil types.
Excess risk in infant mortality among populations living in flood prone areas in Bangladesh: A cluster-matched cohort study over three decades, 1988-2017
Authors: Rerolle Francois , Arnold Benjamin , Benmarhnia Tarik 
Published: November 2022

Abstract
The Ganges-Brahmaputra-Meghna river basin, running through Tibet, Nepal, Bhutan, Bangladesh and northern India, is home to more than 618 million people. Annual monsoons bring extensive flooding to the basin, with floods predicted to be more frequent and extreme due to climate change. Yet, evidence regarding the long-term impacts of floods on children’s health is lacking. In this analysis, we used high-resolution maps of recent large floods in Bangladesh to identify flood prone areas over the country. We then used propensity score techniques to identify, among 58,945 mothers interviewed in six DHS population-based surveys throughout Bangladesh, matched cohorts of exposed and unexposed mothers and leverage data on 150,081 births to estimate that living in flood prone areas was associated with an excess risk in infant mortality of 5.9 [2.8;8.9] additional deaths per 1000 births compared to living in non-flood prone areas over the 30-year period between 1988 and 2017. Finally, drawing on national-scale, high-resolution estimates of flood risk and population distribution, we estimated an excess of 170,136 [80,742;256,645] infant deaths over the past 30 years were attributable to living in flood-prone areas in Bangladesh, with marked heterogeneity in attributable burden by subdistrict and heterogeneity in excess risk over time, with a risk difference of 9.2 [2.9;15.5], 1.5 [-2.6;5.7] and 8.9 [3.7;14.2] per 1000 births for the 1988–1997; 1998–2007 and 2008–2017 decades respectively. Our approach demonstrates the importance of measuring longer-term health impacts from floods and provides a generalizable example for how to study climate-related exposures and long-term health effects.
Faktor Adopsi E-Marketing dan Pengaruhnya Terhadap Kinerja Pemasaran UKM Kuliner Kota Bogor
Authors: Priyanto Hery , Najib Mukhamad , Septiani Stevia 
Published: November 2022

The SMEs business is growing rapidly in Bogor City, especially culinary cluster SMEs. Tight competition in the industrial era 4.0 made the culinary cluster SMEs in Bogor City begin to implement a new marketing strategy via internet called e-marketing in order to achieve business growth. The purpose of this study are identify the type of e-marketing most commonly used by culinary cluster SMEs in Bogor City, analyze factors that influence e-marketing adoption by culinary cluster SMES in Bogor City, and analyze the effect of e-marketing adoption on marketing performance SMES of culinary cluster in Bogor City. The method used non-probability sampling with purposive sampling technique, the sample consist of 100 culinary cluster SMEs in Bogor City. The data obtained were processed using Structural Equation Modeling (SEM) with Partial Least Square u approach and using the Smart-PLS 3.0 program. The results of this study indicated social media marketing is the type of e-marketing that is most widely used by culinary cluster SMEs in Bogor City. Relative advantage, top management support, employee capability, competitive environment, and customer pressure were factors that positively and significantly influence the decision to adopt e-marketing of Bogor City culinary cluster SMEs. E-marketing adoption had positive and significant effect on marketing performance of culinary cluster SMEs in Bogor City.