| 许文琳,姜硕,谭晓婵,孙丹红,潘旭初,王红,王聪.基于GEO数据库分析睡眠剥夺影响肝代谢的核心基因及关键通路[J].浙江中西医结合杂志,2024,34(4): |
| 基于GEO数据库分析睡眠剥夺影响肝代谢的核心基因及关键通路 |
| Analysis of Core Genes and Key Pathways of Sleep Deprivation Affecting Liver Metabolism Based on GEO Database Chip |
| 投稿时间：2023-07-05 修订日期：2024-02-28 |
| DOI： |
| 中文关键词: 睡眠剥夺 肝脏代谢 生物信息学 核心基因 信号通路 |
| 英文关键词:Sleep Deprivation Liver Metabolism Bioinformatics Core Genes Signaling Pathways. |
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| 中文摘要: |
| 目的：基于基因表达数据库(GEO)筛选睡眠剥夺影响肝脏代谢过程的差异基因(DEG),探究DEG的生物学功能及关键信号通路,探析睡眠影响代谢的分子生物学机制。方法：从GEO数据库中筛选出包含有睡眠剥夺和正常对照的基因芯片数据集,使用其自带的分析工具GEO2R,以P值(adj.P)＜0.05且|log2FC|≥1作为筛选条件对数据库中的DEGs进行筛选。同时运用DAVID数据库对DEGs行基因本体(GO)富集分析,运用Pathways行京都基因与基因组百科全书(KEGG)通路富集分析。最后,运用STRING平台构建蛋白质互作用网络(PPI),并运用来自Cytoscape3.8.2软件的cytohubba插件筛选所涉及的核心基因。结果：本次研究总共筛选出54个差异基因,上调基因有34个,下调基因有20个。GO分析结果显示,差异基因的BP主要富集在脂质代谢、类固醇代谢、甘油三酯合成正调节、昼夜节律、SREBP信号通路等,CC主要富集在细胞器、内质网膜、内质网、高尔基体等；MF主要富集在氧化还原酶活性、血红素结合、铁离子结合、跨模信号受体活性等；KEGG通路主要富集在PPAR通路、类固醇激素生物合成通路、癌症转录失调通路、视黄醇新陈代谢通路共计4条信号通路。通过STRING数据库及Cytoscape3.8.2软件共筛选出PPARG、SREBF1、FGF21、Lpin1等为此过程的核心基因。结论：利用生物信息学方法能有效筛选出睡眠剥夺影响肝脏代谢的核心基因和关键通路,为睡眠障碍和代谢失调性疾病的诊治提供了新思路。 |
| 英文摘要: |
| Objective: Based on the Gene Expression Omnibus Database (GEO), to screen Differentially Expressed Genes (DEGs) that sleep deprivation affects on liver metabolism.And to analyze the biological functions and key signaling pathways of DEGs, exploring the molecular biological mechanism of sleep affects metabolic. Methods: The expression profiles sets containing sleep deprivation and normal controls were screened from the GEO database. Using the GEO2R that comes with the GEO database, the P value (adj.P) < 0.05 and |log2FC| DEGs in the database were screened. Gene Ontology (GO) enrichment analysis of DEGs was performed using the DAVID database, and Pathways was selected for Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway enrichment analysis. The Protein Protein Interaction (PPI) was constructed using the STRING platform and the core genes were screened using the cytohubba plug-in of Cytoscape3.8.2. Results: A total of 54 DEGs were screened out in this study, of which 34 were up-regulated and 20 were down-regulated. GO analysis results showed that BP were mainly enriched in lipid metabolism, steroid metabolism, positive regulation of triglyceride synthesis, circadian rhythm, SREBP signaling pathway, etc.. CC was mainly enriched in organelles, endoplasmic reticulum membrane, endoplasmic reticulum , Golgi apparatus, etc.. MF is mainly enriched in oxidoreductase activity, heme binding, iron ion binding, transmodal signal receptor activity, etc.. KEGG pathway is mainly enriched in PPAR pathway, steroid hormone biosynthesis pathway pathway, cancer transcriptional dysregulation pathway , retinol metabolism pathway. The core genes of this process, such as PPARG, SREBF1, FGF21 and Lpin1, were screened out by STRING database and Cytoscape3.8.2 software. Conclusion: This study used bioinformatics methods to effectively screen out the core genes and key pathways that sleep deprivation affects liver metabolism, providing new ideas for the diagnosis and treatment of sleep and metabolic disorders. |
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