Transcriptomic Response of Arabidopsis thaliana to Pseudomonas syringae Infection: An In Silico Approach by Amir Ghaffar Shahriari, Mohamad Hamed Ghodoum Parizipour, Yaser Biniaz, Aminallah Tahmasebi, Fatemeh Gholizadeh

“…A total number of 22 biological pathways were significantly enriched with up-/down-regulated differentially expressed genes (DEGs) in the Kyoto Encyclopedia of Genes and Genomes (KEGG) analysis. Also, 39 TFs of A. thaliana were altered during the bacterial infection. …”
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Developing and validating a drug recommendation system based on tumor microenvironment and drug fingerprint by Yan Wang, Xiaoye Jin, Rui Qiu, Bo Ma, Sheng Zhang, Xuyang Song, Jinxi He

“…The model was trained and validated using the Genomics of Drug Sensitivity in Cancer (GDSC) database, followed by independent validation with the Cancer Cell Line Encyclopedia (CCLE) dataset. Clinical application was assessed using The Cancer Genome Atlas (TCGA) dataset, with Best Overall Response (BOR) serving as the clinical efficacy measure. …”
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Long Noncoding RNA HCG9 Promotes Osteosarcoma Progression through RAD51 by Acting as a ceRNA of miR-34b-3p by Lu Wang, ShuangQing Li, Lin Qi, Lin Ling

“…The candidate lncRNA was further verified by qRT-PCR, and the association of gene expression with clinicopathological features was evaluated by Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway analysis. …”
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Proteome differences of dental stem cells between permanent and deciduous teeth by data-independent acquisition proteomics by Zhang Suping, Liu Yuqing, Dong Jin, Jiao Min, Gu Yongchun, Chen Liling, Yuan Na, Wang Jianrong, Yang Dezhao, Meng Fanwen

“…Subsequent Gene Ontology and Kyoto Encyclopedia of Genes and Genomes enrichment analyses, along with protein–protein interaction network construction, revealed significant metabolic differences and key regulatory nodes. …”
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Clinical Value and Potential Mechanism of miRNA-33a-5p in Lung Squamous Cell Carcinoma by Xiang-Ming Wang, Shang-Wei Chen, Gang Chen, Hua-Fu Zhou, Ting-Qing Gan, Jing-Jing Zeng, Zu-Yun Li

“…The differentially expressed genes (DEGs) of LUSC and the candidate target genes of miRNA-33a-5p were overlapped to acquire a set of specific genes for further analyses of the Kyoto Encyclopedia of Genes and Genomes (KEGG), Gene Ontology (GO), and protein–protein interaction (PPI) network. miRNA-33a-5p overexpressed in LUSC was supported by 706 LUSC and 261 non-LUSC samples gathering from RT-qPCR, miRNA-seq, and public miRNA microarrays. …”
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Mediating Mendelian randomization in the proteome identified potential drug targets for obesity-related allergic asthma by Jiannan Lin, Shuwen Lu, Xiaoyu Zhao

“…We further explored the functions and enriched pathways of the mediating proteins using Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) analyses. Finally, we conducted drug-targeted MR analysis to evaluate the potential of each mediator plasma proteins as a drug target gene. …”
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WNT3A promotes the cementogenic differentiation of dental pulp stem cells through the FOXO1 signaling pathway by Dongmei Cheng, Yang Bao, Xue Wang, Haidong Xiang, Tianyuan Guo, Yong Du, Zhiyong Zhang, Han Guo

“…Pathway enrichment exploration was conducted utilizing gene ontology (GO), Kyoto Encyclopedia of Genes and Genomes (KEGG), Gene Set Enrichment Analysis (GSEA), and Metascape tools. …”
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Global Gene Expression Profiling in PPAR-γ Agonist-Treated Kidneys in an Orthologous Rat Model of Human Autosomal Recessive Polycystic Kidney Disease by Daisuke Yoshihara, Masanori Kugita, Tamio Yamaguchi, Harold M. Aukema, Hiroki Kurahashi, Miwa Morita, Yoshiyuki Hiki, James P. Calvet, Darren P. Wallace, Takafumi Toyohara, Takaaki Abe, Shizuko Nagao

“…Their relevant pathways were identified using the Kyoto Encyclopedia of Gene and Genomes database. Stearoyl-coenzyme A desaturase 1 is a key enzyme in fatty acid metabolism found in the top 5 genes downregulated by PIO treatment. …”
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Network Pharmacology and Molecular Docking Study on the Mechanism of the Therapeutic Effect of Strychni Semen in NSCLC by He Geng, Yujie Xue, Binghua Yan, Zhaoxue Lu, Hengjin Yang, Peng Li, Jundong Zhou

“…Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway analyses were carried out via the Metascape database. …”
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Mechanistic insights into Y-Box binding protein-1 mediated regulation of lipid metabolism and oxidative stress in NAFLD via INHBE/TNF-β pathway by Zhi Ren, Rui Wang, Jun Wei, Zhenzeng Ma, Xiquan Ke

“…RNA sequencing was performed, followed by Gene Ontology (GO), Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway analyses, and protein-protein interaction (PPI) network analyses to identify differentially expressed genes (DEGs). …”
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Constructing adverse outcome pathway for per- and polyfluoroalkyl substances and retinoblastoma based on PI3K-AKT/MAPK signaling pathway by Yuyan GUI, Tingji WANG, Minghao WANG, Yaqi XU, Yunhui ZHANG

“…MethodsChemical-gene interactions and disease-gene interactions from the Comparative Toxicogenomics Database were retracted to identify key toxicological disruption pathways using Kyoto Encyclopedia of Genes and Genomes (KEGG) and a priori knowledge. …”
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Comprehensive Pan-Cancer Analysis and Functional Studies Reveal SLC2A6 as a Ferroptosis Modulator in Hepatocellular carcinoma by Guohong Yan, Hailian Huang, Ziyan Lu, Meifeng Chen, Xiang Wang, Pei Zhong, Chongjiu Qin, Shutian Mo, Chuangye Han, Xiaoling Luo, Xinping Ye

“…Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) enrichment analyses were conducted. …”
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Identification and functional analysis of energy metabolism and pyroptosis-related genes in diabetic nephropathy by Shan He, Jian Ye, Yu Wang, Lu yang Xie, Si Yi Liu, Qin kai Chen

“…Subsequent analyses included Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) enrichment, Gene Set Enrichment Analysis (GSEA), and Protein-Protein Interaction (PPI) network analysis. …”
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DHX37 Impacts Prognosis of Hepatocellular Carcinoma and Lung Adenocarcinoma through Immune Infiltration by Yanni Xu, Qiongchao Jiang, Hejun Liu, Xiaoyun Xiao, Dinghong Yang, Phei Er Saw, Baoming Luo

“…Coexpression genes, Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG), and fundamental regulators were performed via LinkedOmics. …”
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A meta-analysis of whole blood transcriptome reveals genes associated with increased neutrophil activity and T cell suppression in sepsis by T. N. Shruthi, Anbazhagan Kolandaswamy, Prabakara Somanna

“…Significant (p-value ≤ 0.05 and log fold change ≤ − 1.5 or ≥  + 1.5) common genes from six studies were subjected to network analysis and functional enrichment analysis to identify enriched Gene ontology (GO) terms, Kyoto Encyclopedia of Genes and Genomes pathways and hub genes. …”
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Novel immune cross-talk between inflammatory bowel disease and IgA nephropathy by Qianqian Yan, Zihao Zhao, Dongwei Liu, Jia Li, Shaokang Pan, Jiayu Duan, Zhangsuo Liu

“…The three algorithms identified 10 diagnostic genes, MAPK3, NFKB1, FDX1, EPHX2, SYNPO, KDF1, METTL7A, RIDA, HSDL2, and RIPK2; FDX1 and NFKB1 were enhanced in the kidney of IBD mice. Kyoto Encyclopedia of Genes and Genomes analysis showed 15 mutual pathways between the two diseases, with lipid metabolism playing a vital role in the cross-talk. …”
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Multi-Media Tools and Service Delivery in Academic Libraries: A Case Study of Bishop Berham University. by Barigye, Damas

“…The study concludes The study results on the current multi-media tools available in the library of Bishop Berham University Data collected multi-media tools available shows that most of the respondents were Computers represented 67% and this is in line with Britannica concise encyclopedia (2006) defined multimedia as a computer-based electronic system that affords users the opportunity to control, manipulate and integrate media elements like text, voiceover, video, infographics, and animation to ensure effective delivery of information. …”
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Identification of blood transcriptome modules associated with suicidal ideation in patients with major depressive disorder by Min Wang, Hailin Xiang, Jinxue Wei, Yikai Dou, Yushun Yan, Yue Du, Huanhuan Fan, Liansheng Zhao, Rongjun Ni, Xiao Yang, Xiaohong Ma

“…The gene ontology (GO) and Kyoto encyclopedia of genes and genomes (KEGG) databases were used to annotate module functions. …”
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Identification and verification of autophagy-related gene signatures and their association with immune infiltration and drug responsiveness in epilepsy by Han-han He, Xiao-ge Zhang, Fen-fang Chen

“…Additionally, the functional enrichment analysis of Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) were applied. …”
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Screening and validation of tsRNAs associated with lung adenocarcinoma by LU Chunli, SHAN Yifan, XIE Weijia

“…Gene ontology （GO） enrichment analysis and Kyoto Encyclopedia of Genes and Genomes （KEGG） pathway analysis were performed based on DAVID and KOBA KEGG online websites. …”
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