Immunomodulation effects of collagen hydrogel encapsulating extracellular vesicles derived from calcium silicate stimulated-adipose mesenchymal stem cells for diabetic healing by Yen-Hong Lin, Yeh Chen, En-Wei Liu, Mei-Chih Chen, Min-Hua Yu, Cheng-Yu Chen, Chia-Che Ho, Tai-Yi Hsu-Jiang, Jian-Jr Lee, Der-Yang Cho, Ming-You Shie

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O Serogroup-Specific Touchdown-Multiplex Polymerase Chain Reaction for Detection and Identification of Vibrio cholerae O1, O139, and Non-O1/Non-O139 by Adisak Bhumiratana, Achiraya Siriphap, Nutsarin Khamsuwan, Jednipit Borthong, Kaknokrat Chonsin, Orasa Sutheinkul

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The Study of Viral RNA Diversity in Bird Samples Using De Novo Designed Multiplex Genus-Specific Primer Panels by Andrey A. Ayginin, Ekaterina V. Pimkina, Alina D. Matsvay, Anna S. Speranskaya, Marina V. Safonova, Ekaterina A. Blinova, Ilya V. Artyushin, Vladimir G. Dedkov, German A. Shipulin, Kamil Khafizov

“…Since a reliable, bioinformatics-based analytical method for the rapid identification of the sequences was crucial, an NGS-based data analysis module was developed in this study, and its functionality in the detection of novel viruses and analysis of virome diversity was demonstrated.…”
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Genomic and phylogenetic analysis of a NDM-1 producing ST152 Klebsiella pneumoniae isolated from a bloodstream infection in China by Renchi Fang, Lingfang Di, Xuebin Tian, Yongfeng Bai

“…Whole-genome sequencing was conducted using the Illumina HiSeq and Oxford Nanopore GridION X5 platforms, and the genomic features were analyzed using a range of bioinformatics tools. Results: The strain HZKP1 demonstrated resistance to cefepime, ceftazidime, amoxicillin-clavulanic acid, amikacin, ciprofloxacin, meropenem, imipenem, and ertapenem, while showing sensitivity to tigecycline and colistin. …”
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Stimulation of MMP-1 and CCL2 by NAMPT in PDL Cells by Marjan Nokhbehsaim, Sigrun Eick, Andressa Vilas Boas Nogueira, Per Hoffmann, Stefan Herms, Holger Fröhlich, Søren Jepsen, Andreas Jäger, Joni Augusto Cirelli, James Deschner

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Identification and Validation of the Pyroptosis-Related Hub Gene Signature and the Associated Regulation Axis in Diabetic Keratopathy by Yi Cui, Li Wang, Wentao Liang, Li Huang, Shuting Zhuang, Hong Shi, Nuo Xu, Jianzhang Hu

“…After sixteen weeks of streptozocin intraperitoneal injection, corneal epithelium from three diabetic rats and three normal groups underwent whole-transcriptome sequencing. An integrated bioinformatics pipeline, including differentially expressed gene (DEG) identification, enrichment analysis, protein-protein interaction (PPI) network, coexpression, drug prediction, and immune deconvolution analyses, identified hub genes and key drivers in DK pathogenesis. …”
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Transcript Changes of Placental Tissue in Gestational Diabetes Mellitus Based on Transcriptome Sequencing by Sun Y, Wang Y, Liu C, Yang J, Li Q, Zhao F

“…Functional and pathway analyses of these DEGs were conducted using bioinformatics databases. Significant DEGs were validated through real-time quantitative PCR in conjunction with relevant literature.Results: In comparison to the normal pregnancy group, 435 DEGs were identified in the GDM group, comprising 128 upregulated and 307 downregulated genes. …”
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Analysis of differentially expressed genes in hypertension and hypertensive cerebral hemorrhage via RNA-sequencing by Hongwu Qi, Min Qiao, Yansong Liu, Weijun Zeng, Lizhao Zhang, Hongjun Guo

“…Shared and specific differentially expressed genes (DEGs) in HT and HCH were identified using RNA sequencing and bioinformatics analysis. Functional annotation and protein–protein interaction (PPI) network construction of HT- and HCH-specific DEGs were conducted. …”
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Clinical Features and Genetic Analysis of 20 Chinese Patients with X-Linked Hyper-IgM Syndrome by Lin-Lin Wang, Wei Zhou, Wei Zhao, Zhi-Qing Tian, Wei-Fan Wang, Xiao-Fang Wang, Tong-Xin Chen

“…We compared with reported mutation results and used bioinformatics software to predict the effects of mutations on the target protein. …”
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Inhibition of the anti-apoptotic protein BCL2 in EML4-ALK cell models as a second proposed therapeutic target for non-small cell lung cancer. by Richard Junior Zapata Dongo, Diletta Fontana, Luca Mologni, Juan Enrique Faya Castillo, Stefany Fiorella Infante Varillas

“…In addition, our analysis using bioinformatics indicated that ABT-199 not only targets BCL2 but also binds to the active site of all ALK mutants, it was contrasted by in vitro ALK kinase activity inhibition by ABT-199 (5.5 μM). …”
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Expression Profile of Long Noncoding RNAs and Circular RNAs in Mouse C3H10T1/2 Mesenchymal Stem Cells Undergoing Myogenic and Cardiomyogenic Differentiation by Mingshan Li, Zijie Pei, Hongtao Zhang, Jing Qu

“…Next, ncRNA associated with myogenic and cardiomyogenic differentiation was identified using high-throughput RNA sequencing (RNA-seq) data. Bioinformatics analysis was conducted to identify the differentially expressed ncRNAs and the related signaling pathways. …”
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Genome-Wide DNA Methylation in Mixed Ancestry Individuals with Diabetes and Prediabetes from South Africa by Tandi E. Matsha, Carmen Pheiffer, Stephen E. Humphries, Junaid Gamieldien, Rajiv T. Erasmus, Andre P. Kengne

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Evaluating the potential of assembler-binner combinations in recovering low-abundance and strain-resolved genomes from human metagenomes by Hajra Qayyum, Muhammad Sarfraz Talib, Amjad Ali, Masood Ur Rehman Kayani

“…Due to the inherent limitations of metagenomic assemblers and genome binning tools in recovering low-abundance species (<1 %) and strains, we lack comprehensive insight into these communities. Although many bioinformatics approaches are available for recovering metagenome-assembled genomes, their effectiveness in recovering low-abundance species and strains is often questioned. …”
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Crucial Genes in Aortic Dissection Identified by Weighted Gene Coexpression Network Analysis by Hongliang Zhang, Tingting Chen, Yunyan Zhang, Jiangbo Lin, Wenjun Zhao, Yangyang Shi, Huichong Lau, Yang Zhang, Minjun Yang, Cheng Xu, Lijiang Tang, Baohui Xu, Jianjun Jiang, Xiaofeng Chen

“…This study was aimed at identifying the genes and molecular mechanisms in aortic dissection through bioinformatics analysis. Method. Nine patients with AD and 10 healthy controls were enrolled. …”
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Vitamin A family suppresses periodontitis by restoring mitochondrial metabolic reprogramming in macrophages through JAK-STAT pathway by Zishuo Cheng, Shun Huang, Qiya Tang, Danlan Zhang, Lan Huang

“…Given vitamin A’s antioxidant properties and its therapeutic effects on inflammation, this study aims to elucidate how vitamin A influences mitochondrial metabolic reprogramming in inflammatory states, specifically in periodontitis, through genetic bioinformatics and experimental methods.MethodThe study utilized the GSE16134 dataset from the Gene Expression Omnibus (GEO) database, focusing on human periodontitis. …”
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High Performance Frequent Subgraph Mining on Transaction Datasets: A Survey and Performance Comparison by Bismita S. Jena, Cynthia Khan, Rajshekhar Sunderraman

“…Large amounts of graph data are produced in many areas, such as Bioinformatics, Cheminformatics, Social Networks, etc. …”
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Genetics polymorphism of poplars from Moscow region based on high-throughput sequencing of ITS by E. V. Borkhert, G. S. Krasnov, N. L. Bolsheva, Р. Kezimana, O. Yu. Yurkevich, O. V. Muravenko, A. V. Kudryavtseva, N. V. Melnikova

“…Sequencing of ITS of 40 poplar plants was performed on Illumina platform (MiSeq) and about 3 000 reads were obtained for each sample in average. Bioinformatics analysis was performed using CLC Genomics Workbench tool. …”
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Health-related quality of life outcomes reporting associated with FDA approvals in haematology and oncology by Bishal Gyawali, Pallawi Torka, Kristopher Attwood, Medhavi Gupta, Othman Salim Akhtar, Bhavyaa Bahl, Angel Mier-Hicks, Kayla Catalfamo

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Guidelines for the diagnosis and treatment of depressive disorders by integrating Chinese and Western medicine (English edition) by Wei Chen, Wei Li, Yan Li, Zhen Wang, Jianjun Wang, Hongyan Chen, Zhangsheng Yu, Jing Gao, Lin Yu, Yiying Hu, Yongjun Chen, Zhaojun Yan, Lanying Liu, Wangtao Li, Liyuan Luo, Liyuan Guo, Bin Fen, Hongxiao Jia, Zhangjin Zhang

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Pig nasal and rectal microbiotas are involved in the antibody response to Glaesserella parasuis by Pau Obregon-Gutierrez, Yasser Mahmmod, Emili Barba-Vidal, Marina Sibila, Florencia Correa-Fiz, Virginia Aragón

“…Microbiota composition was inferred by V3V4 16S rRNA gene sequencing and bioinformatics analysis, and the antibody response was quantified using the variation between the levels before and after vaccination (normalized per farm). …”
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