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Bioinformatic analysis reveals hub genes and pathways that promote melanoma metastasis.
BMC Cancer ( IF 3.8 ) Pub Date : 2020-09-07 , DOI: 10.1186/s12885-020-07372-5
Wenxing Su 1, 2 , Yi Guan 3 , Biao Huang 2, 4 , Juanjuan Wang 1 , Yuqian Wei 1 , Ying Zhao 1 , Qingqing Jiao 5 , Jiang Ji 1 , Daojiang Yu 6 , Longjiang Xu 7
Affiliation  

Melanoma has the highest mortality rate of all skin tumors, and metastases are the major cause of death from it. The molecular mechanism leading to melanoma metastasis is currently unclear. With the goal of revealing the underlying mechanism, three data sets with accession numbers GSE8401, GSE46517 and GSE7956 were downloaded from the Gene Expression Omnibus (GEO) database. After identifying the differentially expressed gene (DEG) of primary melanoma and metastatic melanoma, three kinds of analyses were performed, namely functional annotation, protein-protein interaction (PPI) network and module construction, and co-expression and drug-gene interaction prediction analysis. A total of 41 up-regulated genes and 79 down-regulated genes was selected for subsequent analyses. Results of pathway enrichment analysis showed that extracellular matrix organization and proteoglycans in cancer are closely related to melanoma metastasis. In addition, seven pivotal genes were identified from PPI network, including CXCL8, THBS1, COL3A1, TIMP3, KIT, DCN, and IGFBP5, which have all been verified in the TCGA database and clinical specimens, but only CXCL8, THBS1 and KIT had significant differences in expression. To conclude, CXCL8, THBS1 and KIT may be the hub genes in the metastasis of melanoma and thus may be regarded as therapeutic targets in the future.

中文翻译:

生物信息学分析揭示了促进黑素瘤转移的中枢基因和途径。

黑色素瘤是所有皮肤肿瘤中死亡率最高的,转移是其死亡的主要原因。目前尚不清楚导致黑色素瘤转移的分子机制。为了揭示潜在的机制,从Gene Expression Omnibus(GEO)数据库下载了登录号为GSE8401,GSE46517和GSE7956的三个数据集。在确定原发性黑素瘤和转移性黑素瘤的差异表达基因(DEG)之后,进行了三种分析,即功能注释,蛋白质-蛋白质相互作用(PPI)网络和模块构建,以及共表达和药物-基因相互作用预测分析。总共选择了41个上调基因和79个下调基因进行后续分析。通路富集分析的结果表明,癌症中的细胞外基质组织和蛋白聚糖与黑色素瘤转移密切相关。此外,从PPI网络中鉴定出七个关键基因,包括CXCL8,THBS1,COL3A1,TIMP3,KIT,DCN和IGFBP5,这些基因均已在TCGA数据库和临床标本中得到验证,但只有CXCL8,THBS1和KIT具有显着性表达差异。综上所述,CXCL8,THBS1和KIT可能是黑色素瘤转移的枢纽基因,因此可能被视为未来的治疗靶标。但只有CXCL8,THBS1和KIT在表达上有显着差异。综上所述,CXCL8,THBS1和KIT可能是黑色素瘤转移的枢纽基因,因此可能被视为未来的治疗靶标。但只有CXCL8,THBS1和KIT在表达上有显着差异。综上所述,CXCL8,THBS1和KIT可能是黑色素瘤转移的枢纽基因,因此可能被视为未来的治疗靶标。
更新日期:2020-09-08
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