Bioinformatics Analysis of miRNAs Targeting TRAF5 in DLBCL Involving in NF-κB Signaling Pathway and Affecting the Apoptosis and Signal Transduction by Chunyao Li, Lanshan Huang, Yongqin Wen, Muhua Yi, Min Gao

“…GEO database was utilized to screen for differentially expressed genes (DEGs) and differential miRNAs in DLBCL tissues. The Gene Ontology (GO) and the Kyoto Encyclopedia of Genes and Genomes (KEGG) were applied to analyse DEGs. …”
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Identification of Associations with Dermatologic Diseases through a Focused GWAS of the UK Biobank by Jason C. Klein, Ruchika Mahapatra, Gary C. Hon, Richard C. Wang

“…We identify 447 sentinel variants, which are enriched for protein-coding variants and an elevated combined annotation-dependent depletion (CADD) score compared with background variants. Through gene ontology enrichment analysis, we identify known pathways involved in melanoma, actinic keratoses, and squamous cell carcinoma and uncover additional pathways. …”
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Exploring the Mechanisms of Zhenbao Pills in the Treatment of Stroke through Network Pharmacology Combined with Mendelian Randomization by Yanhong Liu, Yunqi Hua, Xiaoe Jia

“…Results: This study identified 14 core components and 105 stroke-related targets for ZBP. Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) enrichment analyses revealed that these targets are involved mainly in oxidative stress processes, lipid metabolism, and the PI3K–Akt signaling pathway. …”
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Integrated Analysis of mRNA and lncRNA Expression Profiles Reveals Regulatory Networks Associated with Decompensated Cirrhosis by Li Zhang, Xiaoyu Fang, Suhua Wang, Shasha Ma, Jinyan Zhang, Xiang Dong, Jing Dai, Chuanmiao Liu, Yu Gao

“…The functions of differentially expressed mRNAs were revealed by Gene Ontology (GO) functional annotation and Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway enrichment analyses, and a regulatory network was also constructed. …”
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The target of a crime under the Article 330 of the Criminal Code of Ukraine by V. Yu. Boichuk

“…From the standpoint of philosophical ontology the author has determined the notion and nature of information constituting official information gathered in the course of operative and search or counterintelligence operations and in the defense sphere of the country as the target of a crime under the Art. 330 of the Criminal Code of Ukraine. …”
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Genome-wide identification of the ATP-dependent zinc metalloprotease (FtsH) in Triticeae species reveals that TaFtsH-1 regulates cadmium tolerance in Triticum aestivum. by Yuxi Huang, Lifan Cao, Tanxing Chen, Xiaoqiang Chang, Yumei Fang, Liuliu Wu

“…TaFtsH genes displayed differential responses to CdCl2, ZnSO4, and MnSO4 stress treatments. Gene Ontology (GO) enrichment analysis indicated that TaFtsH genes are involved in protein hydrolysis. …”
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Machine Learning Prediction of Peripheral Mononuclear Cells Based on Interactomic Hub Genes in Periodontitis and Rheumatoid Arthritis by Sri Shivasankari Thilagar, Pradeep Kumar Rathinavelu, Pradeep Kumar Yadalam

“…We used the R software packages for Cytoscape Genemania, Gene Ontology (GO) enrichment, and Kyoto Encyclopaedia of Genes and Genomes (KEGG) pathway enrichment for annotation of biological processes and pathways to validate biological functions of the hub differential gene expression observed, and machine learning was used to identify hub genes from interactomic differential gene dataset. …”
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VCAM-1 Promotes Angiogenesis of Bone Marrow Mesenchymal Stem Cells Derived from Patients with Trauma-Induced Osteonecrosis of the Femoral Head by Regulating the Apelin/CCN2 Pathway by Yiming Shao, Lei Sun, Baodong Ma, Ranran Jin, Yueyao Ban, Ruibo Li, Jianfa Wang, Hongkai Lian, Han Yue

“…We further performed mRNA transcriptome sequencing to explore the mechanisms by which VCAM-1 promotes angiogenesis. Gene ontology biological process enrichment analysis demonstrated that upregulated differentially expressed genes (DEGs) were related to blood vessel development. …”
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Genome-wide DNA methylation and transcriptome sequencing analyses of lens tissue in an age-related mouse cataract model. by Yuzhu Hu, Dongmei Su, Yue Zhang, Yanjiang Fu, Sijia Li, Xiaoya Chen, Xiao Zhang, Shunfei Zheng, Xu Ma, Shanshan Hu

“…The Pearson correlation analysis detected 109 and 33 differentially expressed genes (DEGs) with negative methylation at CCGG and CCWGG sites, respectively, in their promoter regions. Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) functional enrichment analyses showed that DEGs with abnormal methylation at CCGG sites were primarily associated with protein kinase C signaling (Akap12, Capzb), protein threonine kinase activity (Dmpk, Mapkapk3), and calcium signaling pathway (Slc25a4, Cacna1f), whereas DEGs with abnormal methylation at CCWGG sites were associated with ribosomal protein S6 kinase activity (Rps6ka3). …”
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Gene Expression Changes in Venous Segment of Overflow Arteriovenous Fistula by Yasuhiro Hashimoto, Akiko Okamoto, Hisao Saitoh, Shingo Hatakeyama, Takahiro Yoneyama, Takuya Koie, Chikara Ohyama

“…The cDNA microarray analysis identified 397 upregulated genes and 456 downregulated genes. Gene ontology analysis with GeneSpring GX software revealed that biological developmental processes and glycosaminoglycan binding were the most upregulated. …”
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Construction of a 12-gene prognostic model for colorectal cancer based on heat shock protein-related genes by Qin Tong, Junchao Zhou

“…The efficacy and precision of this model were validated utilizing TCGA and Gene Expression Omnibus (GEO) datasets, demonstrating its reliability in CRC prognosis prediction. gene ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) enrichment analyses revealed significant disparities between high- and low-risk groups in chromatin remodeling biological functions and neutrophil extracellular trap formation pathways. …”
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High-Throughput Sequencing Reveals Diverse Sets of Conserved, Nonconserved, and Species-Specific miRNAs in Jute by Md. Tariqul Islam, Ahlan Sabah Ferdous, Rifat Ara Najnin, Suprovath Kumar Sarker, Haseena Khan

“…For understanding better the functions of microRNAs, target genes were analyzed by Gene Ontology and their pathways illustrated by KEGG pathway analyses. …”
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Adipose-Derived Stem Cells Are an Efficient Treatment for Fistula-in-ano of Japanese Rabbit by Xiao Qin, Peng Wang, Yongming Huang, Yansen Li, Min Chao, Wei Wang

“…Our data showed that ADSC treatment had the shortest time to promote fistula healing compared to the other treatments, and fistula filled with new adipose tissue and muscle cells without scar. Gene Ontology (GO) analysis of RNA-seq data showed that the differential genes are enriched in system development and animal organ development. …”
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APIE ILGĄJĮ HERMENEUTIKOS KELIĄ by Tomas Kačerauskas

“…According to the author, Gadamer tries to give an ontological aspect to a piece of art. The art is tragic being. …”
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Identifying ADME-related gene signature for immune landscape and prognosis in KIRC by single-cell and spatial transcriptome analysis by Hongyun Wang, Feizhou Li, Qiong Wang, Xinyuan Guo, Xinbing Chen, Xinrong Zou, Jun Yuan

“…Multivariate analysis confirmed the independent predictive ability of ARPS, and an ARPS-based nomogram was constructed for clinical application. Gene ontology and KEGG pathway analyses revealed immune-related functions and pathways enriched in these groups, with low-risk patients showing better responses to immunotherapy. …”
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Exploration of the Potential Mechanisms of Wumei Pill for the Treatment of Ulcerative Colitis by Network Pharmacology by Jinke Huang, Yijun Zheng, Jinxin Ma, Jing Ma, Mengxiong Lu, Xiangxue Ma, Fengyun Wang, Xudong Tang

“…Based on the identified overlapping common targets, drug-ingredient-target gene network, Gene Ontology (GO) analysis, Kyoto Encyclopedia of Genes and Genomes (KEGG) analysis, and protein-protein interaction (PPI) analysis were conducted. …”
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Identification of Differentially Expressed Genes in COVID-19 and Integrated Bioinformatics Analysis of Signaling Pathways by Linjie Fang, Tingyu Tang, Mengqi Hu

“…Later, by the Database for Annotation, Visualization, and Integrated Discovery (DAVID), they were enriched in the Gene Ontology (GO) terms and Kyoto Encyclopedia of Genes and Genomes (KEGG) pathways. …”
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Performance Comparison of Two Gene Set Analysis Methods for Genome-wide Association Study Results: GSA-SNP vs i-GSEA4GWAS by Ji-sun Kwon, Jihye Kim, Dougu Nam, Sangsoo Kim

“…GSA runs were made with two sets of p-values from a Korean type 2 diabetes mellitus GWAS study: 259,188 and 1,152,947 SNPs of the original and imputed genotype datasets, respectively. When Gene Ontology terms were used as gene sets, i-GSEA4GWAS produced 283 and 1,070 hits for the unimputed and imputed datasets, respectively. …”
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Defensive responses of most antioxidant genes in the freshwater dinoflagellate Palatinus apiculatus to cadmium stress and their implications by Quynh Thi Nhu Bui, Taehee Kim, Han-Sol Kim, Jang-Seu Ki

“…Differential expression gene analysis showed that 21.0 % of total contigs were statistically significant, including 8647 up-regulated and 4195 down-regulated genes. Gene Ontology enrichment results revealed that genes responsive to stress and external stimuli were highly expressed in Cd-treated cells. …”
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The Motives behind the Skepticism of Conventional Medicine Advocates towards Traditional Persian Medicine: An Expert Opinion by Majid Nimrouzi, Zahra Salehi, Faranak Alembizar

“…Some critiques are because of a knowledge gap between ontology and epistemology of complementary medical approaches and conventional medicine. …”
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