Gene Co-expression Network Analysis for Identifying Modules and Functionally Enriched Pathways in Vitiligo Disease: A Systems Biology Study
Gene Co-expression Network Analysis for Identifying Modules and Functionally Enriched Pathways in Vitiligo Disease: A Systems Biology Study
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DOI：
10.18502/ijaai.v19i5.4467
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发表时间：
2020-10-01
影响因子：
1.5
通讯作者：
Baradaran, Behzad
中科院分区：
文献类型：
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作者：
Derakhshani, Afshin;Mollaei, Homa;Baradaran, Behzad
白癜风是皮肤、头发和口腔色素脱失的最常见原因，被称为自身免疫性疾病。遗传和环境因素在疾病的进展中起重要作用。基因表达失调，如microRNA（miRNA），可能是主要的相关因素。白癜风涉及多种生物学过程，发展一种全面的方法有助于我们更好地了解疾病的分子机制。在这项研究中，我们描述了加权基因共表达网络分析作为一种系统生物学方法如何帮助定义主要基因模块，枢纽基因，和信使RNA（mRNA）-miRNA调控网络作为新的生物标志物在白癜风疾病中的作用。基因富集分析表明该模块的基因主要参与G蛋白偶联受体信号通路、淋巴细胞趋化性、趋化因子活性、中性粒细胞迁移、粒细胞趋化性等生物学活性。NDUFAF2、RPF 2、DAPL 1、RPL 34、CIFC 15、NDUFB 3、RPL 26 L1、ACOT 13、HSPB 11和NSA2。microRNAs预测工具（miRWalk）揭示了与感兴趣的模块相关的顶级miRNAs。最后，我们构建了一个药物-靶点网络，该网络表明了一些FDA批准的药物与枢纽基因的相互作用，我们的发现确定了一个重要的模块和主要的枢纽基因，可以被认为是白癜风治疗目的的新生物标志物。
Vitiligo is the most common cause of skin, hair, and oral depigmentation which is known as an autoimmune disorder. Genetic and environmental factors have important roles in the progression of the disease. Dysregulation of gene expression, like microRNAs (miRNA), may serve as major relevant factors. Several biological processes are involved in vitiligo disease and developing a comprehensive approach helps us to better understand the molecular mechanisms of disease.In this research, we describe how a weighted gene co-expression network analysis as a systems biology approach assists to define the primary gene modules, hub genes, and messenger RNA (mRNA)-miRNA regulatory network in vitiligo disease as the novel biomarkers.The results demonstrated a module with a high correlation with vitiligo state. Moreover, gene enrichment analysis showed that this module's genes were mostly involved in some biological activities including G protein-coupled receptors signaling pathway, lymphocyte chemotaxis, chemokine activity, neutrophil migration, granulocyte chemotaxis, etc. The co-expression network was constructed using top hub genes of the correlated module which are named as CXCL10, ARL9, AKR1B10, COX7B, RPL26, SPA17, NDUFAF2, RPF2, DAPL1, RPL34, CIFC15, NDUFB3, RPL26L1, ACOT13, HSPB11, and NSA2. MicroRNAs prediction tool (miRWalk) revealed top miRNAs correlated with the interested module. Finally, a drug-target network was constructed which indicated interactions of some food and drug administration (FDA) approved drugs with hub genes.Our findings specified one important module and main hub genes which can be considered as novel biomarkers for vitiligo therapeutic purposes.