Differential Gene Expression Analysis in a Lumbar Spinal Stenosis Rat Model via RNA Sequencing: Identification of Key Molecular Pathways and Therapeutic Insights by Jin Young Hong, Wan-Jin Jeon, Hyunseong Kim, Changhwan Yeo, Hyun Kim, Yoon Jae Lee, In-Hyuk Ha

“…Methods: We used bioinformatics analysis to identify significant alterations in gene expression between the LSS-induced and sham groups. …”
Get full text

m6A-modified lncRNA GAS5 promotes M1-polarization of microglia in alcohol use disorder by Shuang Zhu, Peng Wang, Jian Hu

“…Overexpression of GAS5 decreased the migratory capability of SH-SY5Y cells, whereas silencing GAS5 increased this ability. Bioinformatics analyses predicted a relationship between expression levels of miR-136–5p and GAS5, which was subsequently confirmed using dual-luciferase reporter assays. …”
Get full text

MacSyFinder v2: Improved modelling and search engine to identify molecular systems in genomes by Néron, Bertrand, Denise, Rémi, Coluzzi, Charles, Touchon, Marie, Rocha, Eduardo P.C., Abby, Sophie S.

Get full text

Comprehensive analysis of disulfidptosis-related genes and the immune microenvironment in heart failure by Linna Zhao, Juanjuan Zhang, Juanjuan Zhang, Qiuhang Song, Cheng Dai, Yiping Qin, Aiying Li, Aiying Li

“…Nonetheless, the effect of disulfidoptosis on the immune microenvironment of HF is not well comprehended. In this paper, bioinformatics analysis was performed to investigate how disulfidptosis-related genes (DRGs) affect the immune microenvironment of HF.MethodsThe expression of four DRGs was initially examined using bulk RNA-Seq and single-cell RNA sequencing data. …”
Get full text

Molecular Sex Identification in the Hardy Rubber Tree (Eucommia ulmoides Oliver) via ddRAD Markers by Wencai Wang, Guoqian Yang, Xin Deng, Fengqing Shao, Yongquan Li, Wei Guo, Hong Liang, Xianzhi Zhang

“…In consequence, five candidate male-specific loci but no female-specific loci were predicated among the 183,752 male and 147,122 female catalogue loci by bioinformatics analysis. Subsequent PCR (polymerase chain reaction) amplification and Sanger sequencing examinations were performed on another 24 individuals, 12 for each sex, from a separate population. …”
Get full text

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

Get full text

SMR-guided molecular subtyping and machine learning model reveals novel prognostic biomarkers and therapeutic targets in non-small cell lung adenocarcinoma by Baozhen Wang, Yichen Yin, Anqi Wang, Weidi Liu, Jing Chen, Tao Li

“…By employing Mendelian randomization (MR) analysis, machine learning techniques, and comprehensive bioinformatics approaches, we conducted an in-depth investigation into the molecular characteristics, prognostic markers, and potential therapeutic targets of LUAD. …”
Get full text

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

Get full text

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.…”
Get full text

RBM47 is a novel immunotherapeutic target and prognostic biomarker in gliomas by Wei Wei, Yongfu Cao, Xin Lu, Long Wang, Jianbin Li, Guojun Deng, Donghai Li, Limin Xiao

“…The prognosis of patients with gliomas considering RBM47 was elucidated using bioinformatics methods and clinical data, with results validated using immunohistochemistry and immunofluorescence analyses. …”
Get full text

Anticancer Activity of Holothuria Leucospilota-Derived Saponin on MKN45 Gastric Cancer Cell via Upregulation of CDH1 Hub Gene by Khadijeh Sadegh, Amirhossein Ahmadi, Ahmad Shadi, Ahmad Ghasemi

“…Hub genes of GC were identified through bioinformatics analysis. The effects of HLBS on the expression of the two top-ranked GC hub genes were measured using real-time polymerase chain reaction. …”
Get full text

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. …”
Get full text

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

Get full text

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. …”
Get full text

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. …”
Get full text

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. …”
Get full text

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. …”
Get full text

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). …”
Get full text

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. …”
Get full text

Comparative evaluation of specimen type and processing conditions for studying oyster microbiomes by Esam Almuhaideb, Nur A. Hasan, Nur A. Hasan, Christopher Grim, Shah Manzur Rashed, Salina Parveen

Get full text