Exploring molecular disparities of H-type vasculature endothelial cells in osteonecrosis of the femoral head through single-cell analysis by Wei Shi, Dong Li, Qian Xu, Kai Zhang, Xinyu Liang, Hui Li, Zhijun Li, Huafeng Zhang

“…Molecular differences were assessed using Gene Ontology and KEGG analysis. Hypoxia, ferroptosis, pyroptosis, and parthanatos indices were calculated, and transcription factors were predicted using SENIC. …”
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TMEM147 Correlates with Immune Infiltration and Serve as a Potential Prognostic Biomarker in Hepatocellular Carcinoma by Sheng Cheng, Jutang Li, Ming Xu, Qun Bao, Jiaoxiang Wu, Peng Sun, Bo Han

“…The functions of the TMEM147-related differentially expressed genes (DEGs) were identified by Gene Ontology (GO)/Kyoto Encyclopedia of Genes and Genomes (KEGG) enrichment analyses and gene set enrichment analysis (GSEA). …”
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Identification of hub genes, non-coding RNAs and pathways in Renal cell carcinoma (RCC): A comprehensive in silico study by Ahmad Golestanifar, Hengameh Khedri, Parisa Noorabadi, Mohammadreza Saberiyan

“…Our approach combined differential expression analysis, functional enrichment through Gene Ontology (GO) and KEGG pathway mapping, and a Protein-Protein Interaction (PPI) network to identify crucial hub genes in KIRC progression. …”
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Effects of Baicalin on Gout Based on Network Pharmacology, Molecular Docking, and in vitro Experiments by Liu C, Liu W, Lu H, Fan Y, Wang A

“…Then, the potential targets and signaling pathways were acquired via protein–protein interaction (PPI), as well as the Gene Ontology (GO) and the Kyoto Encyclopedia of Genes and Genomes (KEGG) analysis. …”
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A graph neural network approach for hierarchical mapping of breast cancer protein communities by Xiao Zhang, Qian Liu

“…Results Using a large amount of publicly available proteomics data, we created a hierarchical tree for breast cancer protein communities using a novel hierarchical graph neural network, with the supervision of gene ontology terms and assistance of a pre-trained deep contextual language model. …”
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Anti-lung Cancer Mechanism of Quercetin Based on Network Pharmacology and Experimental Validation by Yi WANG, Xiaofang PU

“…Target enrichment analysis was carried out using the DAVID database, along with Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway analysis. …”
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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

“…Functional enrichment analysis revealed that these DEGs included those involved in key biological processes, including synaptic plasticity, extracellular matrix organization, and hormonal regulation. Gene ontology analysis highlighted critical molecular functions such as mRNA binding and integrin binding, as well as cellular components such as contractile fibers and the extracellular matrix, which were significantly affected by LSS. …”
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Potential Biomarkers for Predicting the Risk of Developing Into Long COVID After COVID‐19 Infection by Zhiyong Hou, Yu Ming, Jun Liu, Zhong Wang

“…The integration of both DEGs and differentially expressed module‐genes (DEMGs) regarding long COVID and COVID‐19 was intersected by following Gene Ontology (GO), Kyoto Encyclopedia of Genes and Genomes (KEGG), and Gene Set Enrichment Analysis (GSEA). …”
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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 nomogram combining RBM47 expression levels with clinical prognostic factors demonstrated strong predictive accuracy, achieving a C-index of up to 0.863 in both TCGA training and CGGA validation groups. Gene Ontology, Kyoto Encyclopedia of Genes and Genomes, and Gene Set Variation Analysis indicated that RBM47 is closely related to immunity and inflammation. …”
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Mechanisms of breast cancer treatment using Gentiana robusta: evidence from comprehensive bioinformatics investigation by Bo Xiong, Xinxin Zhang, Dongzhi Sangji, Lianghong Ni, Mingjie Fan, Beibei Fan

“…Building upon prior research on QJ’s chemical constituents, we conducted Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway analysis using the DAVID database. …”
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Early transcriptomic changes at the skin interface during Powassan virus transmission by Ixodes scapularis ticks by Dakota N. Paine, Dakota N. Paine, Meghan Hermance, Saravanan Thangamani, Saravanan Thangamani, Saravanan Thangamani

“…Differentially expressed genes were analyzed for pathway enrichment using gene ontology and pathway enrichment analyses.ResultsOur findings reveal that tick feeding alone significantly impacts the skin transcriptome within the first 1 to 3 h of tick attachment. …”
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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

“…The Database for Annotation, Visualization, and Integrated Discovery (DAVID) was also utilized to analyze Gene Ontology (GO). Results. DEG analysis revealed that 1,113 genes were associated with AD. …”
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The Identification of Key Genes and Pathways in Glioma by Bioinformatics Analysis by Mingfa Liu, Zhennan Xu, Zepeng Du, Bingli Wu, Tao Jin, Ke Xu, Liyan Xu, Enmin Li, Haixiong Xu

“…The glioma gene expression profile GSE4290 was analyzed for differentially expressed genes (DEGs). Gene ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) analyses were applied for the enriched pathways. …”
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Identification of biomarkers associated with coronary artery disease and non-alcoholic fatty liver disease by bioinformatics analysis and machine learning by Chuan Lu, Mei Han, Qiqi Ma, Li Ying, Yue Zhang

“…A total of 554 overlapping DEGs associated with CAD and NAFLD were obtained by analysis of GSE113079 and GSE89632 datasets. Gene Ontology, Kyoto Encyclopedia of Genes and Genomes enrichment analysis showed that the co-DEGs were significantly enriched in immune effector process, inflammation response and lipid metabolism. …”
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The functional insight into the genetics of cardiovascular disease: results from the post-GWAS study by L. O. Bryzgalov, E. E. Korbolina, I. S. Damarov, T. I. Merkulova

“…A significant impact on binding sites of thirteen TFs including those involved in blood cells formation, hematopoiesis, macrophage function, inflammation, and vasoconstriction was found in K562 cells. 21 rSNP gene targets and 5 partners predicted by PPI were enriched for spliceosome and endocytosis KEGG pathways, endosome sorting complex and mRNA splicing REACTOME pathways. Related Gene Ontology terms included mRNA splicing and processing, endosome transport and protein catabolic processes. …”
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MicroRNA-Based Markers of Oral Tongue Squamous Cell Carcinoma and Buccal Squamous Cell Carcinoma: A Systems Biology Approach by Setareh Shojaei, Pouya Menbari, Shokoofeh Jamshidi, Amir Taherkhani

“…Thus, we aimed to indicate signaling pathways, Gene Ontology terms, and prognostic markers mediating the malignant transformation of the normal oral tissue to OTSCC and BSCC. …”
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Active Ingredients and Potential Mechanism of Additive Sishen Decoction in Treating Rheumatoid Arthritis with Network Pharmacology and Molecular Dynamics Simulation and Experimenta... by Ren J, Liu Z, Qi X, Meng X, Guo L, Yu Y, Dong T, Li Q

“…Additive Sishen decoction (ASSD) is a widely used traditional Chinese medicine for the treatment of RA; however, its active ingredients and the mechanism of its therapeutic effects remain unclear.Methods: To predict the ingredients and key targets of ASSD, we constructed “drug-ingredient-target-disease” and protein–protein interaction networks. Gene ontology and Kyoto Encyclopedia of Genes and Genomes enrichment analyses were performed to explore the potential mechanism. …”
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Overexpression of StBBX14 Enhances Cold Tolerance in Potato by Heng Zhang, Mingjun Chen, Xiaobo Luo, Li Song, Fei Li

“…A transcriptome analysis showed that a total of 2449 and 6274 differentially expressed genes were identified in WT-1 h and WT-12 h, respectively, when compared with WT-0h. A Gene Ontology enrichment analysis revealed that photosynthesis, cell wall, thylakoid, transcription regulator activity, oxidoreductase activity and glucosyltransferase activity were significantly enriched in <i>OE-StBBX14</i> and WT. …”
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Integrative Bioinformatics Analysis Unravel the Association between Intracerebral Hemorrhage and Cellular Apoptosis through Immune Infiltration by Pandi Chen, Gengfan Ye, Jia Li, Kuan Feng, Guangyao Zhu, Maosong Chen, Wei Chen

“…We retrieved microarray data of ICH patients from the Gene Expression Omnibus database and intersected it with apoptotic genes, filtering out apoptosis-related differentially expressed genes (ARDEGs). Gene ontology and Kyoto Encyclopedia of Genes and Genomes enrichment analyses were conducted, and a logic regression-based diagnostic model for ICH was constructed. …”
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The multi-target mechanism of action of Selaginella doederleinii Hieron in the treatment of nasopharyngeal carcinoma: a network pharmacology and multi-omics analysis by Huaguo Liang, Caifu Fang, Meng Qiu

“…Active components and their targets in S. doederleinii were screened from the TCMSP and other databases, identifying 32 overlapping genes. Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway analysis revealed that these genes are primarily involved in critical biological processes like protein phosphorylation and cell cycle regulation. …”
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