Bioinformatics analysis of candidate genes and potential therapeutic drugs targeting adipose tissue in obesity

Objective. The aim of this study was to identify the candidate genes in type 2 diabetes mellitus (T2DM) and explore their potential mechanisms. Methods. The gene expression profile GSE26168 was downloaded from the Gene Expression Omnibus (GEO) database. The online tool GEO2R was used to obtain differentially expressed genes (DEGs). Gene Ontology (GO) term enrichment analysis and Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway analysis were performed by using Metascape for annotation, visualization, and comprehensive discovery. The protein-protein interaction (PPI) network of DEGs was constructed by using Cytoscape software to find the candidate genes and key pathways. Results. A total of 981 DEGs were found in T2DM, including 301 upregulated genes and 680 downregulated genes. GO analyses from Metascape revealed that DEGs were significantly enriched in cell differentiation, cell adhesion, intracellular signal transduction, and regulation of protein kinase activity. KEGG pathway analysis revealed that DEGs were mainly enriched in the cAMP signaling pathway, Rap1 signaling pathway, regulation of lipolysis in adipocytes, PI3K-Akt signaling pathway, MAPK signaling pathway, and so on. On the basis of the PPI network of the DEGs, the following 6 candidate genes were identified: PIK3R1, RAC1, GNG3, GNAI1, CDC42, and ITGB1. Conclusion. Our data provide a comprehensive bioinformatics analysis of genes, functions, and pathways, which may be related to the pathogenesis of T2DM.

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Bioinformatics analysis of candidate genes for milk production traits in water buffalo (Bubalus bubalis)

Tropical Animal Health and Production ◽

10.1007/s11250-019-01984-1 ◽

2019 ◽

Vol 52 (1) ◽

pp. 63-69

Author(s):

C. Du ◽

T. X. Deng ◽

Y. Zhou ◽

N. Ghanem ◽

G. H. Hua

Keyword(s):

Candidate Genes ◽

Milk Production ◽

Water Buffalo ◽

Bioinformatics Analysis ◽

Bubalus Bubalis ◽

Production Traits ◽

Milk Production Traits

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Identification of Candidate Genes and Pathways in Dexmedetomidine-Induced Cardioprotection in the Rat Heart by Bioinformatics Analysis

International Journal of Molecular Sciences ◽

10.3390/ijms20071614 ◽

2019 ◽

Vol 20 (7) ◽

pp. 1614 ◽

Cited By ~ 4

Author(s):

Yusuke Yoshikawa ◽

Naoyuki Hirata ◽

Hirofumi Terada ◽

Yasuaki Sawashita ◽

Michiaki Yamakage

Keyword(s):

Map Kinase ◽

Candidate Genes ◽

Phosphatase Activity ◽

Bioinformatics Analysis ◽

Ischemia Reperfusion ◽

Differentially Expressed ◽

P53 Pathway ◽

Rat Hearts ◽

Significant Pathway ◽

Adrenergic Receptor Agonist

Dexmedetomidine (DEX), a highly selective alpha2 adrenergic receptor agonist, directly protects hearts against ischemia/reperfusion (I/R) injury. However, the detailed mechanism has not been fully elucidated. We studied differentially expressed mRNAs and miRNAs after DEX administration in rat hearts by comprehensive analysis. Additionally, bioinformatics analysis was applied to explore candidate genes and pathways that might play important roles in DEX-induced cardioprotection. The results of microarray analysis showed that 165 mRNAs and 6 miRNAs were differentially expressed after DEX administration. Through bioinformatics analysis using differentially expressed mRNAs, gene ontology (GO) terms including MAP kinase tyrosine/serine/threonine phosphatase activity and pathways including the p53 pathway were significantly enriched in the down-regulated mRNAs. Dusp1 and Atm were associated with the GO term of MAP kinase tyrosine/serine/threonine phosphatase activity and the p53 pathway, respectively. On the other hand, no significant pathway was found in the target mRNAs of deregulated miRNAs. The results indicated some possible key genes and pathways that seem to be of significance in DEX-induced cardioprotection, although miRNAs seem to be unlikely to contribute to cardioprotection induced by DEX.

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