Transcriptome Analysis Reveals Key Genes Involved in the Response of <i>Triticum urartu</i> to Boron Toxicity Stress by Gul Sema Uyar, Anamika Pandey, Mehmet Hamurcu, Tomas Vyhnanek, Mustafa Harmankaya, Ali Topal, Sait Gezgin, Mohd. Kamran Khan

“…Interestingly, both Gene Ontology enrichment and KEGG pathways emphasized the possible involvement of the genes related to the photosynthetic process and apparatus in the high B tolerance of the <i>T. urartu</i> genotype. …”
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Impaired hippocampal neurogenesis associated with regulatory ceRNA network in a mouse model of postoperative cognitive dysfunction by Jingrun Lin, Xiaoqiu Zhu, Xuan Li, Yu Hong, Yaohui Liang, Siqi Chen, Chenzhuo Feng, Lin Cao

“…Hippocampal mRNA expression was analyzed using Encyclopedia of Genes and Genomes (KEGG) and Gene Ontology (GO) enrichment. A competing endogenous RNA (ceRNA) network was constructed using microRNA (miRNA) target prediction databases (miRanda, miRTarbase, miRcode) and sequencing results. …”
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"ANAPUS KANTO": M. FOUCAULT NAUJOJI MORALĖS GENEALOGIJA by Jūratė Baranova

“…he finds echo of his own project "ontology of present". But Foucault's investigation of morals goes into opposite direction than Kant's. …”
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Dual disease co-expression analysis reveals potential roles of estrogen-related genes in postmenopausal osteoporosis and Parkinson’s disease by Dongdong Yu, Dongdong Yu, Jian Kang, Chengguo Ju, Qingyan Wang, Ye Qiao, Ye Qiao, Long Qiao, Long Qiao, Dongxiang Yang

“…Differentially expressed genes (DEGs) among PMO, PD, and ERGs were subjected to an array of bioinformatics analyses, including Kyoto Encyclopedia of Genes and Genomes (KEGG) and Gene Ontology (GO) enrichment analyses, in addition to protein-protein interaction (PPI) network analysis. …”
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Involvement of Cholesterol Metabolic Pathways in Recovery from Noise-Induced Hearing Loss by Na Sai, Xi Shi, Yan Zhang, Qing-qing Jiang, Fei Ji, Shuo-long Yuan, Wei Sun, Wei-Wei Guo, Shi-Ming Yang, Wei-Ju Han

“…In total, 2,158 proteins were identified using iTRAQ. Both gene ontology and Kyoto Encyclopedia of Genes and Genomes (KEGG) database analyses showed that immune and metabolic pathways were prominently involved during the impairment stage of acute hearing loss. …”
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Identification and validation of the important role of KIF11 in the development and progression of endometrial cancer by Biying Wang, Lunmin Bao, Xiaoduo Li, Guang Sun, Wu Yang, Nanzi Xie, Ling Lei, Wei Chen, Hailong Zhang, Man Chen, Xing Zhao, Xiufang Wan, Rui Yuan, Hongmei Jiang

“…Functional enrichment analysis of the DEGs was conducted using Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) enrichment analyses. …”
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Exploration of the mechanism of Lithospermum erythrorhizon oil in treating atopic dermatitis based on network pharmacology and experimental validation of the PI3K-Akt pathway regul... by Weisheng Hu, Yinlan Wang, Yingjie Zhou, Junbao Shi, Zengyan Li, Xiaoling Jiang, Qinyuan Wu, Changming Zhong, Huilan Weng, Sijie Ouyang, Yuan Jing, Xianxiang Cai, Mingda Ye, Ning Huang

“…A protein-protein interaction (PPI) network was built using STRING, and functional analysis Gene Ontology (GO) and pathway enrichment Kyoto Encyclopedia of Genes and Genomes (KEGG) were performed on Metascape. …”
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Correlation analysis of the impact of Clonorchis sinensis juvenile on gut microbiota and transcriptome in mice by Xueling Deng, Shitao Li, Yuhong Wu, Jiali Yao, Wei Hou, Jiangyao Zheng, Boying Liang, Xiaole Liang, Qiping Hu, Zhanshuai Wu, Zeli Tang

“…Gut transcriptome analysis demonstrated an increase in the number of differentially expressed genes (DEGs) as infection progressed. Enriched Gene Ontology items highlighted immune and detoxification-related processes, including immunoglobulin production and xenobiotic metabolic processes. …”
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Col1A1 as a new decoder of clinical features and immune microenvironment in ovarian cancer by Xiao Xiao, Fangyi Long, Shaolan Yu, Wengjuan Wu, Dayan Nie, Xiaoyan Ren, Wen Li, Xujuan Wang, Ling Yu, Pinghan Wang, Gang Wang

“…The LinkedOmics and INPUT2 databases were used to analyze differential gene expression in OC, This was followed by enrichment analysis using the Kyoto Encyclopedia of Genes and Genomes (KEGG) and Gene Ontology (GO) annotations to identify and predict potential signaling pathways associated with COL1A1.ResultsOur study demonstrated that COL1A1 expression was significantly elevated in OC tissues compared to normal ovarian tissues. …”
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Overexpression of miR-21-5p as a potential pathogenesis marker for ovarian endometriosis by Mohamed Mahmoud, Amr Ahmed WalyEldeen, Mohamed A. Samie, Ahmed M. Sadek, Sayed Elakhras, Mohamed Samir, Osama Ahmed, Rasha Mohamed Samir Sayed, Ahmed Abdelaziz Baiomy, Sherif Abdelaziz Ibrahim, Hebatallah Hassan

“…Using bioinformatics tools, Gene Ontology Kyoto Encyclopedia of Genes and Genomes pathways, and protein–protein interactions, we identified differentially expressed genes and several pathways regulated by miR-21-5p that may contribute to endometriosis progression. …”
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Circular RNA circ-Olfm1 induces progression of Alzheimer’s disease by regulating FOXO3a by YANG Hongyan, LIAO Qirong, HOU Mingliang

“…Methods‍　‍Six-month-old APP/PS1 mouse model of AD and wild type (WT) mice were subjected and then randomly divided into WT group, WT+ circ-Olfm1 knockout group, AD group (transgenic APP/PS1 mice), AD+ circ-Olfm1 knockout group, AD+FOXO3a knockout group, with 3 mice in each group. ① The total RNA of mouse brain was extracted, and the differential expression of circRNAs and mRNAs between the AD mice and WT mice was detected, and the obtained circRNAs and mRNAs were analyzed with gene ontology (GO) analysis. ② RT‐qPCR was used to detect the expression of the top 10 up-regulated and down-regulated circRNAs, as well as the expression of circ-Olfm1 and miR-330-5p. ③ Lentiviral vectors were prepared and stereotaxically injected into the cortex or hippocampus of WT and AD mice to knock out circ-Olfm1 gene. …”
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miR-149-3p Is a Potential Prognosis Biomarker and Correlated with Immune Infiltrates in Uterine Corpus Endometrial Carcinoma by Xiaoyuan Lu, Li Jing, Sicong Liu, Haihong Wang, Buze Chen

“…The TargetScan, PicTar, Gene Ontology (GO), and Kyoto Encyclopedia of Genes and Genomes (KEGG) analyses were used to determine the involvement of miR-149-3p target genes in function. …”
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Development of machine learning models for diagnostic biomarker identification and immune cell infiltration analysis in PCOS by Wenxiu Chen, Jianliang Miao, Jingfei Chen, Jianlin Chen

“…These differentially expressed genes (DEGs) were further analyzed for Gene Ontology (GO) terms and Kyoto Encyclopedia of Genes and Genomes (KEGG) pathways. …”
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Dysfunctional β-cell autophagy induces β-cell stress and enhances islet immunogenicity by Matthew C. Austin, Charanya Muralidharan, Saptarshi Roy, Justin J. Crowder, Jon D. Piganelli, Amelia K. Linnemann, Amelia K. Linnemann

“…Lastly, we co-cultured ATG7Δβ-cell islet cells with diabetogenic BDC2.5 helper T cells and evaluated T cell activation.ResultsWe found that all ATG7Δβ-cell mice developed diabetes between 11-15 weeks of age. Gene ontology analysis revealed a significant upregulation of pathways involved in inflammatory processes, response to ER stress, and the ER-associated degradation pathway. …”
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O-GlcNAcylation attenuates ischemia-reperfusion-induced pulmonary epithelial cell ferroptosis via the Nrf2/G6PDH pathway by Liuqing Yang, Hexiao Tang, Jin Wang, Dawei Xu, Rui Xuan, Songping Xie, Pengfei Xu, Xinyi Li

“…Results First, we identified O-GlcNAc transferase 1 (Ogt1) as a differentially expressed gene in lung epithelial cells of acute lung injury/acute respiratory distress syndrome (ALI/ARDS) patients, using single-cell sequencing, and Gene Ontology analysis (GO analysis) revealed the enrichment of the ferroptosis process. …”
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Integrating bulk and single-cell RNA sequencing data: unveiling RNA methylation and autophagy-related signatures in chronic obstructive pulmonary disease patients by Shi-Xia Liao, Lan-Ying Zhang, Ling-Mei Shi, Huai-Yu Hu, Yan-Hui Gu, Ting-Hua Wang, Yao Ouyang, Peng-Peng Sun

“…Functional enrichment analyses, including Gene Ontology (GO), gene set enrichment analysis (GSEA), and gene set variation analysis (GSVA), were performed. …”
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Construction of the bromodomain-containing protein-associated prognostic model in triple-negative breast cancer by Wei Chen, Yushuai Yu, Chenxi Wang, Zirong Jiang, Xiewei Huang, Yidan Lin, Hongjing Han, Qing Wang, Hui Zhang

“…Differentially expressed BRDRGs (DE-BRDRGs) were determined by overlapping DEGs1, DEGs2 and DEGs3. Gene Ontology (GO), Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway analysis, and protein-protein interaction (PPI) network analysis were conducted to investigate active pathways and molecular interactions. …”
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Host–virus interactions during infection with a wild-type ILTV strain or a glycoprotein G deletion mutant ILTV vaccine strain in an ex vivo system by Gayathri Gopakumar, Mauricio J.C. Coppo, Andrés Diaz-Méndez, Carol A. Hartley, Joanne M. Devlin

“…Several immune checkpoint inhibitors with likely roles in ILTV-mediated immune augmentation, and gene ontologies indicating cytokine response, and cytokine signaling were upregulated in both TOCs. …”
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MAP17 is a Novel NASH Progression Biomarker Associated with Macrophage Infiltration, Immunotherapy Response, and Oxidative Stress by Huang Z, Chen J, Liu S, Xiang X, Long Y, Tan P, Fu W

“…Additionally, we conducted gene ontology (GO), Kyoto Encyclopedia of Genes and Genomes (KEGG), and gene set enrichment analysis (GSEA) to elucidate the mechanisms by which MAP17 operates. …”
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Integrated bioinformatics analysis and experimental validation of exosome-related gene signature in steroid-induced osteonecrosis of the femoral head by Renqun Mao, Wen Bi, Mengyue Yang, Lei Qin, Wenqing Li

“…Gene Set Variation Analysis (GSVA), Gene Ontology (GO), and Kyoto Encyclopedia of Genes and Genomes (KEGG) were conducted to investigate latent enriched pathways. …”
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