Insights of cellular and molecular changes in sugarcane response to oxidative signaling by Lucas Felipe Silva, Kellya F. M. Barreto, Helaine Cristiane Silva, Iara Dantas de Souza, Carlos H. S. G. Meneses, Adriana F. Uchôa, Katia C. Scortecci

“…Functional annotation through Gene Ontology and KEGG pathway enrichment showed that oxidative signaling led to the repression of photosynthesis-related pathways in leaves, while promoting pathways related to protein processing, glycolysis, and carbon metabolism in roots. …”
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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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Transcriptomic, histological and biochemical analyses of Macrobrachium nipponense response to acute heat stress by Xiao Wu, Yaoran Fan, Jianbin Feng, Keyi Ma, Jiale Li

“…These DEGs were significantly involved in the regulation of transcription, proteolysis, nucleus, cytoplasm, metal ion binding, and ATP binding by Gene ontology (GO) enrichment analysis. Furthermore, the DEGs in the hepatopancreas were significantly enriched in KEGG pathways including neuroactive ligand-receptor interaction, thyroid hormone synthesis, and ECM-receptor interaction. …”
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Exploring the impact of insufficient thermal ablation on hepatocellular carcinoma: NDST2 overexpression mechanism and its role in facilitating growth and invasion of residual cance... by Weijun Wan, Danxia Guo, Tong Kang, Jinshu Pang, Yunjing Pan, Jiamin Chen, Wei Liao, Yuji Chen, Peng Lin, Lipeng Li, Hong Yang, Yun He

“…The clinical significance of NDST2 in HCC was evaluated by integrating datasets. Gene ontology and pathway analysis were conducted to explore the potential signaling pathways regulated by NDST2. …”
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Differential expressed genes (DEGs) and differential alternative splicing genes (DASs) revealed the common pathologic mechanism of three bacterial pathogens to American eels (Angui... by Zihao Chen, Guanghua Sun, Songlin Guo

“…Compared to the Con group, result of the RNA-seq of six infected groups showed 2247 common differentially expressed genes (DEGs). Gene Ontology (GO) enrichment analysis identified 23 common terms and Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway analysis highlighted 18 common pathways. …”
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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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Transcriptomic and behavioral studies reveal that glutamate receptors are involved in depressive-like behavior in adult olive flounder Paralichthys olivaceus by Liangfang Liu, Tangsong Feng, Mengmeng Shi, Huafeng Zou, Weiqun Lu

“…Meanwhile glial fibrillary acidic protein, the biomarkers of astroglial pathology, and glutamatergic synaptic genes were significantly up-regulated in AG flounder. In addition, Gene Ontology (GO) enrichment analysis revealed that DEGs enriched in peptide biosynthetic process, translation procession were down-regulated in the AG flounder. …”
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Proteomics analysis reveals age-related proteins in the urine of chronic kidney disease patients by Lin Xiong, Changwei Wu, Sipei Chen, Yong Zhang, Li Wang, Yi Li, Guisen Li

“…The analyzes conducted using the Gene Ontology and the Kyoto Encyclopedia of Genes and Genomes revealed that DEPs were significantly enriched in several clusters related to aging. …”
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Identification of important genes related to ferroptosis in early missed abortion based on WGCNA by Yulu Zeng, Jiayi Gan, Jinlian Cheng, Changqiang Wei, Xiangyun Zhu, Shisi Wei, Lihong Pang

“…This study aimed to identify key genes related to ferroptosis that could serve as novel biomarkers for early missed abortion. Findings from gene ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway enrichment analyses indicate a correlation between iron- DEFRGS in key modules and the p53 signaling, mitophagy-animal, and protein digestion and absorption pathways. …”
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Desmoglein-2 was a novel cancer-associated fibroblasts-related biomarker for oral squamous cell carcinoma by Jin Liu, Zhonghao Sun, Shihui Cao, Hao Dai, Ze Zhang, Jingtao Luo, Xudong Wang

“…Differentially expressed genes and Cox regression analyses were used to identify candidate genes, and their functions were evaluated using Gene Ontology and Kyoto Encyclopedia of Genes and Genomes enrichment analyses. …”
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Mechanistic insights into epithelial-mesenchymal transition mediated cisplatin resistance in ovarian cancer by Taha Umair Wani, Hyun-Yi Kim, Geum-Hwa Lee, Young Je Lim, Han-Jung Chae, Ji-Ye Kim, Hyonok Yoon

“…We found large number of EMT related terms predominant in the top gene ontologies (GO). We also found Extracellular matrix (ECM) and actin cytoskeleton genes highly altered in the resistant cells. …”
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Decreased Spp1 Expression in Acute Myocardial Infarction after Ischemia and Reperfusion Injury by Ling Li, Jungang Huang, Zongkai Zhao, Zhuzhi Wen, Kang Li, Tianjiao Ma, Lisui Zhang, Junmeng Zheng, Shi Liang

“…We used the GSE83472 dataset from the Gene Expression Omnibus (GEO) database to find differential RNA expression between ischemia-reperfusion tissue and control samples. In addition, Gene Ontology (GO) annotation and Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway analyses were performed to find the biological property of 449 RNAs from GSE83472 via the Database for Annotation, Visualization, and Integrated Discovery (DAVID). …”
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Investigation of the Mechanism of Complement System in Diabetic Nephropathy via Bioinformatics Analysis by Bojun Xu, Lei Wang, Huakui Zhan, Liangbin Zhao, Yuehan Wang, Meng Shen, Keyang Xu, Li Li, Xu Luo, Shasha Zhou, Anqi Tang, Gang Liu, Lu Song, Yan Li

“…Then, the protein-protein interactions (PPIs) of DEGs were performed by STRING database, the result was integrated and visualized via applying Cytoscape software, and the hub genes in this PPI network were selected by MCODE and topological analysis. Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway enrichment analyses were carried out to determine the molecular mechanisms of DEGs involved in the progression of DN. …”
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Identification of candidate genes involved in Zika virus-induced reversible paralysis of mice by John D. Morrey, Venkatraman Siddharthan, Hong Wang, Alexandre L. R. Oliveira, Keiichiro Susuki, Rakesh Kaundal, Sara M. Freeman, Aaron J. Thomas, Naveen Duhan, Nathan G. Corry

“…To refine the search for candidate DEGs we used gene ontology analysis and RT-qPCR to select 3 DEGs that could be involved with the node of Ranvier function and 5 DEGs that could be involved with synaptic function. …”
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Identification of immune-associated genes with altered expression in the spleen of mice enriched with probiotic species using RNA-seq profiling by Anh Duc Truong, Ha Thi Thanh Tran, Nhu Thi Chu, Lanh Phan, Hoai Thi Phan, Thu Huong Dang, Hoang Vu Dang, La Anh Nguyen

“…In addition, the Kyoto encyclopedia of genes and genomes and gene ontology analyses revealed that the DEGs were predominantly enriched in defense responses to pathogens, including inflammatory bowel diseases, malaria, leukaemia virus 1, and herpes virus, as well as immune processes related to immune response and signal transduction. …”
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Next generation sequencing uncovers multiple miRNAs associated molecular targets in gallbladder cancer patients by Rahul Saxena, Baskar Chakrapani, M. P. Sarath Krishnan, Amit Gupta, Sweety Gupta, Jayanta Das, Subash C. Gupta, Anissa A. Mirza, Shalinee Rao, Bela Goyal

“…Biological processes and related pathways were determined using the Panther and Gene Ontology databases. 439 significantly differentially expressed miRNAs were identified; 19 of them were upregulated and 29 were downregulated. …”
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Identification and subcellular localization of proteins that interact with Duck plague virus pUL14 in infected host cells by Jieyu Wan, Mingshu Wang, Anchun Cheng, Wei Zhang, Qiao Yang, Bin Tian, Xumin Ou, Di Sun, Yu He, Xinxin Zhao, Ying Wu, Shaqiu Zhang, Juan Huang, Zhen Wu, YanLing Yu, Ling Zhang, Dekang Zhu, Renyong Jia, Mafeng Liu, Shun Chen

“…A total of 281 host proteins and 58 viral proteins that interacted with pUL14 were identified. Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway enrichment analyses revealed that the identified proteins could be assigned to several different subcellular locations and functional classes. …”
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Proteomics unveil candidate biomarkers and pathogenesis of subacute thyroiditis by Litong Ran, Xiufei Liu, Yongfeng Tian, Jiaran Zhu, Zhengyuan Gong, Qiao Qiao, Xin Jiang, Yuren Wang, Guojun Yang, Hongting Zheng, Yi Zheng, Hua Qu

“…Here, we profiled thyroid in situ protein alterations in fine-needle aspiration biopsy samples from SAT patients using proteomic analysis and uncovered 57 differentially abundant proteins. Gene ontology and KEGG enrichment analyses identified that these proteins were enriched in processes involving infection, inflammatory response and cell adhesion and junction, which likely contribute to the pathogenesis. …”
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Discovery of mutated oncodriver genes associated with glioblastoma originated from stem cells of subventricular zone through whole exome sequence profile analysis, and drug repurpo... by Arnob Sarker, Burhan Uddin, Reaz Ahmmed, Sabkat Mahmud, Alvira Ajadee, Md. Al Amin Pappu, Md. Abdul Aziz, Md. Nurul Haque Mollah

“…Then molecular mechanisms of GBM development were investigated by these three overexpressed driver genes through gene ontology (GO), KEGG-pathways, Gene regulatory network (GRN) and mutation analysis. …”
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Exploration of metastasis-related signatures in osteosarcoma based on tumor microenvironment by integrated bioinformatic analysis by Shiyao Liao, Xing Gao, Kai Zhou, Yao Kang, Lichen Ji, Xugang Zhong, Jun Lv

“…DEGs with similar biological functions were grouped into the same module by Gene Ontology (GO) analysis and MCODE analysis. Prognostic DEGs were selected in two datasets through survival analysis. …”
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