Role of miR-15b/16–2 cluster network in endometrial cancer: An in silico pathway and prognostic analysis

IF 0.8 Q4 GENETICS & HEREDITY
Anoop Kallingal , Sanu Thankachan , Thejaswini Venkatesh , Shama Prasada Kabbekodu , Padmanaban S. Suresh
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引用次数: 0

Abstract

Endometrial cancer (EC) is the second most common cancer in women. A large number of human cancers exhibit dysregulation of microRNA expression including EC. MiR-15b/16–2 is one of the best-known miRNA clusters that is expressed in many types of cancer tissues. Herein, we analyzed the expression of individual miR-15b/16–2 cluster members, its paralogues, and their target network analysis, as well as their prognostic significance in EC. UALCAN and GEPIA2 were used to analyze the expression of the individual members of the cluster. The gene target was predicted through miRTarBase, and the genes were then compared through the TCGA-UCEC dataset. The differential gene expression and network analysis identified 175 DEGs associated with critical cancer-related pathways. The prognostic significance and metastatic prediction were carried out using GEPIA2 and HCMDB tools. In UCEC patient samples, miR- 15b/16–2 cluster expression is negatively correlated with the overall survival of the patients. The uterus-specific miRNA-lncRNA, miRNA-circRNA, and miRNA-sncRNA networks of miR- 15b/16–2 cluster contain 1164 edges and nodes consisting of 5 sncRNA, 124 circRNA, and 1552 genes. The DEGs analysis led to the identification of SIPA1L2, PDCD1, CCNJ, ENTPD7, PLEKHA5, NPAS3, DPH5, BTF3, NPAS3, SENP2, and CCND3 as a significant predictor of overall survival in UCEC patients. The analysis of metastasis found 24 genes significantly associated with brain and lymph node metastasis. The analysis of drug-gene interactions revealed 267 FDA-approved drugs for treating cancers. Our data provided novel insight on the miR-15b/16–2 cluster role in EC and prioritized the findings for experimental verification. Besides, more comprehensive clinical and mechanistic studies are needed to confirm our findings in endometrial cancer.

miR-15b/ 16-2簇网络在子宫内膜癌中的作用:计算机通路和预后分析
子宫内膜癌(EC)是女性中第二常见的癌症。包括EC在内的大量人类癌症都表现出microRNA表达失调。MiR-15b/ 16-2是最著名的miRNA簇之一,在许多类型的癌症组织中表达。本文中,我们分析了单个miR-15b/ 16-2簇成员、其类似物、它们的靶网络分析的表达,以及它们在EC中的预后意义。使用UALCAN和GEPIA2分析集群中单个成员的表达。通过miRTarBase预测基因靶点,然后通过TCGA-UCEC数据集对基因进行比较。差异基因表达和网络分析确定了175个与关键癌症相关途径相关的基因。使用GEPIA2和HCMDB工具进行预后意义和转移预测。在UCEC患者样本中,miR- 15b/ 16-2簇表达与患者总生存率呈负相关。miR- 15b/ 16-2集群的子宫特异性miRNA-lncRNA、miRNA-circRNA和miRNA-sncRNA网络包含1164个边和节点,由5个sncRNA、124个circRNA和1552个基因组成。DEGs分析发现SIPA1L2、PDCD1、CCNJ、ENTPD7、PLEKHA5、NPAS3、DPH5、BTF3、NPAS3、SENP2和CCND3是UCEC患者总生存期的重要预测因子。转移分析发现24个基因与脑和淋巴结转移显著相关。对药物-基因相互作用的分析揭示了267种fda批准的治疗癌症的药物。我们的数据为miR-15b/ 16-2集群在EC中的作用提供了新的见解,并优先考虑了实验验证的结果。此外,需要更全面的临床和机制研究来证实我们在子宫内膜癌中的发现。
本文章由计算机程序翻译,如有差异,请以英文原文为准。
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来源期刊
Meta Gene
Meta Gene Biochemistry, Genetics and Molecular Biology-Genetics
CiteScore
1.10
自引率
0.00%
发文量
20
期刊介绍: Meta Gene publishes meta-analysis, polymorphism and population study papers that are relevant to both human and non-human species. Examples include but are not limited to: (Relevant to human specimens): 1Meta-Analysis Papers - statistical reviews of the published literature of human genetic variation (typically linked to medical conditionals and/or congenital diseases) 2Genome Wide Association Studies (GWAS) - examination of large patient cohorts to identify common genetic factors that influence health and disease 3Human Genetics Papers - original studies describing new data on genetic variation in smaller patient populations 4Genetic Case Reports - short communications describing novel and in formative genetic mutations or chromosomal aberrations (e.g., probands) in very small demographic groups (e.g., family or unique ethnic group). (Relevant to non-human specimens): 1Small Genome Papers - Analysis of genetic variation in organelle genomes (e.g., mitochondrial DNA) 2Microbiota Papers - Analysis of microbiological variation through analysis of DNA sequencing in different biological environments 3Ecological Diversity Papers - Geographical distribution of genetic diversity of zoological or botanical species.
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