bluuebunny/crossref_metadata_2025_split huggingface dataset:
Identification of Potential Crosstalk Genes and Mechanisms Between Periodontitis and Diabetic Nephropathy through Bioinformatic Analysis
Authors: Lu Huijuan , Sun Jia , Sun Jieqiong 
Published: September 2023

Abstract
Background
Periodontitis (PD) and diabetic nephropathy (DN) are significant public health concerns globally and are closely related with each other. This study aimed to identify potential crosstalk genes, pathways, and mechanisms associated with the interaction between PD and DN.
Methods
Expression profiles of PD and DN were retrieved from the GEO database, and differentially expressed genes (DEGs) were screened, followed by identification of co-expressed differential genes. Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway enrichment analyses were performed using R software. A protein-protein interaction network (PPI) was constructed via STRING website, and key crosstalk genes were selected using Cytoscape. Subsequent GO and KEGG analyses were conducted for the key genes, and a validation dataset was obtained from the GEO database for differential gene validation. The TRRUST website was employed to identify transcription factors (TFs) associated with the key crosstalk genes between PD and DN, followed by differential analysis of TFs.
Results
A total of 17 crosstalk genes were obtained. Among them, SAMSN1, BCL2A1, IL19, IL1B, RGS1, CXCL3, CCR1, CXCR4, CXCL1 and PTGS2 were identified as key crosstalk genes between PD and DN. Additionally, sixteen key TFs were discovered.
Conclusion
This bioinformatic analysis revealed potential crosstalk genes between PD and DN. The identified key genes participate in signaling pathways, including cytokine signaling and chemokine signaling transduction, which might collectively influence these two diseases. These findings may provide insights for future research.
Predicting pancreatic cancer outcome with necrosis-associated long noncoding RNAs
Authors: Zhu Yanqiu , Duan Jin , Yu Haibin , Yang Jun 
Published: September 2023

Abstract
Background: The pathogenesis of pancreatic cancer remains elusive, despite its high mortality rate and limited therapeutic efficacy. Therefore, it is imperative to explore the potential role of necrosis in the pathogenesis of pancreatic cancer.
Methods: Gene expression and clinical data were from The Cancer Genome Atlas (TCGA) database .
To identify long non-coding RNA (lncRNA), we conducted co-expression analysis using immune genes from the database. The risk model was constructed by employing univariate and multivariate Cox regressions, as well as Lasso penalized regression analysis. Then, the patients were divided into high-risk and low-risk groups. Subsequently, we conducted an assessment of our signature across diverse clinical settings, encompassing clinical-pathological characteristics, tumor-infiltrating immune cells, and checkpoint-related biomarkers.Prognostic prediction was achieved by integrating differentially expressed long non-coding RNA (lncRNA) signatures associated with necroptosis. We constructed a highly predictive nomogram by fusing necrosis related lncRNA signature with clinical features.
Results: We generated lncRNA signatures by considering the variations in the expression of different lncRNAs.The AUC of the ROC curve, which pertains to the signature's predictive ability for the 5-year survival rate, was determined to be 0.918. Further analysis demonstrated that our signature is capable of effectively differentiating unfavorable survival outcomes, prognostic clinic-pathological characteristics, and accurately determining tumor infiltration status. We found a significant correlation between the low risk group and the high expression of immune checkpoint related genes.
Conclusion: A pancreatic cancer lncRNA signature of innovative nature, demonstrating promising prognostic value, was developed through the utilization of the TCGA database. Our research can provide valuable evidence for the diagnosis, treatment, and prognosis evaluation of pancreatic cancer.
Comparative Efficacy of Different Growth Hormone Supplementation Protocols in Improving Clinical Outcomes in Women with Poor Ovarian Response Undergoing Assisted Reproductive Therapy: A Network Meta-analysis
Authors: Xu Zheyun , Tong Weiquan , Yang Ze , Zhang Hongyan , Chen Xingbei 
Published: September 2023

Abstract

Growth hormone(GH) is widely used in assisted reproduction for patients with poor ovarian response(POR), but the optimal dosage and timing remains unclear. The aim of this study was to evaluate and compare the efficacy of different GH supplementation protocols through a network meta-analysis (NMA) and determine the optimal treatment protocol. This study was reported based on the Preferred Reporting Items for Systematic Reviews for Network Meta‑Analysis (PRISMA‑NMA) statement. Databases including PubMed, Web of Science, Cochrane Library and Embase were searched until June 2023. A total of 524 records were retrieved in our search, and 23 clinical studies comprising 4889 cycles were involved. Seven different GH protocols were identified. Results showed that compared to the control group, daily administration of 4–8 IU of GH during the follicular phase of the stimulation cycle had the best comprehensive therapeutic effects on improving the number of retrieved oocytes, mature oocytes, endometrial thickness, and reducing gonadotropin requirements in POR patients undergoing assisted reproductive therapy, with a relatively brief treatment duration and a moderate total GH dose. Subgroup analysis demonstrated that this protocol could significantly improve the clinical pregnancy rate of POR patients in the randomized controlled trials (RCT) subgroup and the African subgroup. Therefore, its clinical application is suggested. Besides, the potential advantages of long-term GH supplementation protocol need to be explored. Further rigorous and well-designed multi-arm RCTs are needed to confirm the conclusions drawn from this study.
Effect of Once Weekly Semaglutide in Patients with Type 2 Diabetes in National Guard Primary Health Care, Jeddah, Saudi Arabia: a retrospective cohort study.
Authors: Alzahrani Mahmoud Abdullah , Rammal Lama , Felemban Razaz , Khan Monammed Anwar , Saad Hamzah , Abdullatif Abdulelah , Alawashiz Zyad , Alsulami Nabil , Alrezqi Muhammed 
Published: September 2023

Abstract

Purpose In this study we aimed to analyze the effects of Semaglutide injection (Ozempic) in patients with diabetes on glycemic control and weight. Furthermore, identify the percentage of discontinuation due to Semaglutide side effects. Methods The study was performed in the Primary Health Care in King Abdulaziz Medical City, Jeddah, Saudi Arabia. BestCare (Health Information System refers to a smart and interactive electronic clinical record system that contains the Patient's medical history) was used to collect patients’ data. The study included all patients, a total of 238 patients, who were diagnosed with T2DM who used subcutaneous Semaglutide with a starting does of 0.25 mg. Only patients who have taken the medication for 6 months or more were included. All diabetic patients who were pregnant, lactating, or under 18 were excluded. This study was a retrospective cohort study. Efficacy of Semaglutide in HbA1c and weight were the two primary objectives. Results Significant reduction in both HbA1c (P = 0.001) and weight (P = < 0.001) were noted in compliant patients who were on a diet and exercise. HbAlc was reduced from 8.2 ± 1.54 to 6.9 ± 1.44, while weight decreased from an average of 97KG to 89.2KG. Semaglutide side effects had a huge impact in patients’ compliance, 25.2% of the population discontinued Semaglutide due to side effects. Conclusion It has been noticed that type 2 diabetic patients using Semaglutide have had better glycemic control and better weight management. Also, patient following a generally healthy diet and consistent exercise have a significant reduction in weight. The noticeable improvement with lifestyle intervention strongly, recommend the use of Semaglutide along with following diet and exercise, which is helpful in the control and management of diabetes.
End-to-End Pseudonymization of Fine-Tuned Clinical BERT Models
Authors: Vakili Thomas , Henriksson Aron , Dalianis Hercules 
Published: September 2023

Abstract
Many state-of-the-art results in natural language processing (NLP) rely on large pre-trained language models (PLMs). These models consist of large amounts of parameters that are tuned using vast amounts of training data. These factors cause the models to memorize parts of their training data, making them vulnerable to various privacy attacks. This is cause for concern, especially when these models are applied in the clinical domain, where data are very sensitive. One privacy-preserving technique that aims to mitigate these problems is training data pseudonymization. This technique automatically identifies and replaces sensitive entities with realistic but non-sensitive surrogates. Pseudonymization has yielded promising results in previous studies. However, no previous study has applied pseudonymization to both the pre-training data of PLMs and the fine-tuning data used to solve clinical NLP tasks.
This study evaluates the predictive performance effects of end-to-end pseudonymization of clinical BERT models on five clinical NLP tasks compared to pre-training and fine-tuning on unaltered sensitive data. A large number of statistical tests are performed, revealing minimal harm to performance when using pseudonymized fine-tuning data. The results also find no deterioration from end-to-end pseudonymization of pre-training and fine-tuning data. These results demonstrate that pseudonymizing training data to reduce privacy risks can be done without harming data utility for training PLMs.
Anchorage Performance of a New Left Spiral Rebar bolt under Different Surrounding Rock Strength and borehole Depth
Authors: Zhang Ming , Cao Chen , Li Guanghan , Guo Baolong 
Published: September 2023

Abstract
The theory and technology of rock bolting are fundamental research topics for strata control in civil and mining engineering. Rebar bolts are commonly used for roadway primary support in underground coal mine. To adapt to deep resource mining, a new left spiral rebar bolt has been developed. Compared to conventional rebar bolts, the result of installation test showed that the new bolt reduced of 41.5% and 57.9% in stirring resistance force and torque, respectively. In laboratory pullout tests, PVC and aluminum sleeves were used to simulate weak and medium strength surrounding rocks. The average peak pullout force, displacement at the peak load and energy absorption increased by 27%, 107% and 108%, respectively, using PVC sleeve; and increased by 113%, 109% and 212%, respectively, using aluminum sleeve. Field tests were conducted under soft coal, hard coal and medium strength rock geo-conditions. Different borehole depths were selected to precisely calculate the average anchorage performance of the new bolt. Results showed that the average peak pullout force of the new bolt increased by 37%, 38% and 28%, respectively, under different surrounding rock conditions. Moreover, based on a huge amount of on-site test results, the pullout curves in field-testing were summarised and classified into 6 different patterns, which were discussed from a viewpoint of causality mechanism. The research findings validate that the newly developed bolt has better anchorage performance com-pared to conventional rebar bolts, making it a new anchorage material for deep resource mining.
Glucocorticoid Synergistically Activate Stat3 and NF-κB with Inflammatory Cytokines and Enhance the Anti-inflammatory Function of Mesenchymal Stem/Stromal Cells
Authors: Shi Yufang , Huang Peiqing , Sun Rongrong , Xu Chenchang , Jiang Zixuan , Zuo Muqiu , Li Yinghong , Liu Rui , Gong Peixia , Han Yuyi , Fang Jiankai , Li Peishan , Shao Changshun 
Published: September 2023

Abstract
Glucocorticoid (GC) is essential for maintaining immune homeostasis. While GC is known to regulate the expression of genes related to inflammation in immune cells, the effects of GC, especially in the presence of inflammation, on non-immune cells remain largely unexplored. In particular, the impact of GC on inflammatory cytokine-induced immune modulatory responses of tissue stromal cells is unknown, though it has been widely used to modulate tissue injuries. Here we found that GC could enhance the expression of TSG6, a vital tissue repair effector molecule, in IFNγ and TNFα treated human umbilical cord (UC)-MSCs. NF-κB activation was found to be required for GC-promoted TSG6 upregulation in IFNγ and TNFα activated UC-MSCs. STAT3 was also found to enhance TSG6 expression in MSCs received IFNγ, TNFα and GC. NF-κB was also found to promote the phosphorylation (activation) of STAT3. Importantly, human UC-MSCs pretreated with a cocktail containing GC, IFNγ, and TNFα could significantly enhance the therapeutic effect of human UC-MSCs in an acute lung injury mouse model, as reflected by reduced infiltration of immune cells and down-regulation of iNOS in macrophages in the lung. Together, the findings reveal a novel link between GR, NF-κB and STAT3 in regulating the immunomodulatory and regenerative properties of MSCs, providing novel information for the understanding and treatment of inflammatory conditions.
Rapid Preparation of Co1-xMxSb3 (M = Fe, Mn) Skutterudites two series filling: Enabling high-efficiency thermoelectric
Authors: Diantoro Markus , Sawitri Rizky Aditya , Aditya Dicky , Mufti Nandang , Taufiq Ahmad , Nasikhudin Nasikhudin , Hastuti Erna , Said Suhana Mohd 
Published: September 2023

Abstract
The skutterudite, of general formula CoSb3 is a thermoelectric material with high mobility, large atomic mass, and high electrical conductivity. As the Seebeck coefficient is more than 100 µVK-1, coupled with a thermal conductivity is around 10 Wm-1K-1 using Fe and Mn doping, it provides a pathway for the attainment of improved Figure of Merit. Fe and Mn with stoichiometric fractions x = 0, 0.05, 0.1, and 0.15 are expected to decrease thermal conductivity and increase electrical conductivities through the skutterudite's Phonon Glass Electron Crystal (PGEC) structure. Skutterudites of formulation Co1-xMxSb3 (M = Fe, Mn) were synthesized using the modified polyol method, and the materials were characterized using XRD, SEM-EDX, FTIR, Raman, and I-V meters. The particle size of the Co1-xMxSb3 ranged from 21.06–32.24 nm, and the cell unit volume was 743.5-746.2 Å3. Furthermore, adding Fe and Mn doping changed the local crystal structure. The SEM analysis showed that the grains were agglomerated, while the mapping of Co, Fe, Mn, and Sb indicated that these elements were evenly distributed on the surface. FTIR functional group analysis at wave numbers ~ 418–424 cm-1 exhibited Co-Fe and Co-Mn bonds, while Co-Sb bonds were detected at ~ 406–410 cm-1. The concentration of charge carriers and electrical conductivity from the Raman and I-V meters increased with the stoichiometric doping fraction. The electrical conductivity obtained ranges from 103-105 Ω-1.cm-1, which implies that Co1-xMxSb3 is a semiconductor material with the potential for thermoelectric applications.
A case report of carcinoma of the papilla of Vater associated with a hyperplasia–dysplasia–carcinoma sequence by pancreaticobiliary maljunction
Authors: Korai Takahiro , Kimura Yasutoshi , Watanabe Kazunori , Low Siew-Kee , Imamura Masafumi , Nagayama Minoru , Kukita Kazuharu , Murakami Takeshi , Kato Toru , Kondo Yuta , Kyuno Daisuke , Sugawara Taro , Murota Ayako , Kawakami Yujiro , Masaki Yoshiharu , Nakase Hiroshi , Takemasa Ichiro 
Published: September 2023

Abstract
Background
Pancreaticobiliary maljunction (PBM) is a known risk factor for biliary tract cancer. However, its association with carcinoma of the papilla of Vater (PVca) remains unknown. We report a case with PVca that was thought to be caused by the hyperplasia–dysplasia–carcinoma sequence, which is considered a mechanism underlying PBM-induced biliary tract cancer.
Case presentation:
A 70-year-old woman presented with white stool and had a history of cholecystectomy for the diagnosis of a non-dilated biliary tract with PBM. Esophagogastroduodenoscopy revealed a tumor in the papilla of Vater, and PVca was histologically proven by biopsy. We finally diagnosed her with PVca concurrent with non-biliary dilated PBM (cT1aN0M0, cStage IA, according to the Union for International Cancer Control, 8th edition), and subsequently performed subtotal stomach-preserving pancreaticoduodenectomy. Pathological findings of the resected specimen revealed no adenomas and dysplastic and hyperplastic mucosae in the common channel slightly upstream of the main tumor, suggesting a PBM related carcinogenic pathway with hyperplasia–dysplasia–carcinoma sequence. Immunostaining revealed positivity for CEA. CK7 positivity, CK20 negativity, and MUC2 negativity indicated that this PVca was of the pancreaticobiliary type. Genetic mutations were exclusively detected in tumors and not in normal tissues, and bile ducts from formalin-fixed paraffin-embedded samples included mutated-ERBB2 (Mutant allele frequency, 81.95%). Moreover, of the cell-free deoxyribonucleic acid (cfDNA) extracted from liquid biopsy mutated-ERBB2 was considered the circulating-tumor deoxyribonucleic acid (ctDNA) of this tumor.
Conclusions
Herein, we report the first case of PVca with PBM potentially caused by a “hyperplasia–dysplasia–carcinoma sequence” detected using immunostaining and next-generation sequencing. Careful follow-up is required if pancreaticobiliary reflux persists, considering the possible development of PVca.
Effect of the Imperfect Channel Estimation on Achievable NOMA Rate
Authors: Belső Zoltán , Pap László 
Published: September 2023

Abstract
In recent years, Non-orthogonal Multiple Access (NOMA) has beenproposed as an alternative to the more traditional Orthogonal MultipleAccess (OMA) schemes for mobile communication. In the NOMA method,the resource domains (like power and bandwidth) are not split but sharedbetween the users of the network. The non-orthogonality means thatthere is cross-talk between the signals of different users,and the interference is either cancelled by a method called successiveinterference cancellation (SIC) or treated as part of the noise. Comparing the achievable capacity region of OMA and NOMA schemes showthat NOMA has advantage over OMA. The SIC method requires knowledge of the channel characteristicbetween the base station and the user. In the ideal case where allthe channel conditions are precisely known, NOMA always performs better thanor equal to OMA. In real application, the channel characteristic canonly be estimated, which can be non-perfect.In this paper, we will examine the effect of non-perfect channel estimationon the performance of NOMA and will find that in some cases, NOMAstill perform better than OMA, but in other cases OMA would performbetter.
Accuracy of Cone-Beam Computed Tomography in Detection of Root Perforations Using Different Voxel Sizes in Comparison to Digital Periapical Radiograph, An in vitro study
Authors: Abada Hisham , gemaie Dana El , Shreif Mohamed El , Hatata Nour 
Published: September 2023

AbstractObjectives:The aim of this study is to quantitatively compare the diagnostic accuracy of CBCT with 0.2 and 0.4 mm3voxel sizes and a digital PR for the detection of strip perforation for mesial root of the mandibular first molar with and without root canal obturation when evaluated by different observer specialty.Materials and Methods:48 intact mandibular first molars were selected for this study, the teeth were divided to the following groups: (i)no strip perforation and no obturation, (ii) no strip perforation and obturation, (iii) strip perforation and no obturation, (iv) strip perforation and obturation. ﻿Each tooth was inserted in a dry mandible to obtain intraoral digital, CBCT images were obtained using two voxel sizes 0.2 and 0.4 mm3. Two general practitioners, two endodontists, and two dentomaxillofacial radiologists were asked to evaluate all images for detection of strip root perforation individually and together. The sensitivity and specificity of all images modalities to diagnose perforations were calculated.Results:There was no statistically significant difference between the accuracy of the PR images observed by the two general practitioners and two radiologists, while they showed a statistically low significant difference compared to the images observed by the two endodontists. CBCT images accuracy showed a higher significant difference than PR images observed by general practitioners and radiologists.Conclusions:﻿ CBCT was associated with significantly greater accuracy for detection of strip root perforation than PR. When two endodontist specialists observed the PR together, they showed a higher significance difference in the detection of root perforation compared to general practitioners and radiologists, and they showed no significant difference compared CBCT images. There was no significant difference between 0.2 and 0.4 mm3voxel sizes of CBCT images.Clinical Relevance: The accuracy of PR in the detection of root perforation is equal to that of CBCT when observed by two endodontists, and it is higher than the accuracy of PR images observed by general practitioners and radiologists.
Prevalence of Post-Traumatic Stress Disorder and Associated Factors in Post- Conflict Areas, North Shoa Zone, Ethiopia: A Community Based Cross- Sectional Study
Authors: Mengistu Bethelehem Taye , Engidaw Nigus Alemnew , Engda Abayneh Shewangzaw , Wubetu Abate Dargie , Seyoum worku Abemie , Niguse Elda mekonne , getye Birhan , Basha Elyas Admasu 
Published: September 2023

Abstract
Background
Post-traumatic stress disorder places an enormous burden on conflict-affected society. People in conflict-affected areas have higher rates of mental disorders, in particular post-traumatic stress disorder, than those usually found in the non-conflict-affected general population. There is scarce evidence in Ethiopia regarding post-traumatic stress disorder in residents of conflict-affected areas. Therefore, the aim of this study is to assess the prevalence and associated factors of Post-Traumatic Stress Disorder among people in a post-conflict area, North Shoa, Ethiopia.
Methods
A community-based cross-sectional study design was employed from May 24-June 24, 2022, in the North Shoa Zone, Amhara, Ethiopia. The Post-Traumatic Stress Disorder Checklist for DSM-5 (PCL-5) was used to measure the symptoms of Post-Traumatic Stress Disorder, and the data was collected by direct interview. All collected data were entered into Epi Data version 4.6 and analyzed with SPSS version 25. Bivariable and multivariable regression models were used to determine the factors associated with Post-traumatic stress disorder symptoms. A p-value of less than 0.05 was considered statistically significant.
Result
A total of 830 participants were interviewed with a response rate of 96%. The estimated prevalence of Post-Traumatic Stress Disorder was found to be 63% (95% CI 60–66%). In the multivariable logistic regression, being female (AOR = 4.2, 95% CI (2.82, 6.27)), being unable to read and write (AOR = 3.08, 95% CI (1.67, 5.69)), witnessing the murder of loved ones (AOR = 3.28, 95% CI (1.58, 6.79)), witnessing the murder of strangers (AOR = 2.04, 95% CI (1.33, 3.11)), being verbally threatened or insulted (AOR = 4.09, 95% CI (2.69, 6.21)). Having poor and moderate social support (AOR = 5.26, 95% CI (3.35, 8.28)), (AOR = 1.89, 95% CI (1.15, 3.13)), respectively, was significantly associated with Post-Traumatic Stress Disorder.
Conclusion
More than half of the dwellers living in conflict-affected areas experienced post-traumatic stress disorder. Treating and using coping mechanisms regarding identified factors is a way to minimize the burden of post-traumatic stress disorder.