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Construction of Adipogenic ceRNA Network Based on lncRNA Expression Profile of Adipogenic Differentiation of Human MSC Cells
Biochemical Genetics ( IF 2.4 ) Pub Date : 2021-07-24 , DOI: 10.1007/s10528-021-10115-1
Chengcheng Liang 1 , Sayed Haidar Abbas Raza 1 , Muhammad Abuzar Raza Naqvi 2 , Yanrong Feng 1 , Rajwali Khan 3 , Zuhair M Mohammedsaleh 4 , Abdullah F Shater 5 , Bassam M Al-Ahmadi 6 , Fayez M Saleh 7 , Muhammad Ahsan Bilal 8 , Linsen Zan 1, 9
Affiliation  

The Long non-coding RNA (lncRNA) expression profile data of ten samples including human Mesenchymal Stem Cell (MSC) adipogenic differentiation 0, 3, and 6 days from the GEO database, and then perform gene ID conversion, BLAST comparison, and annotation marking. Finally, group A (treatment group on day 3 of differentiation and control group on day 0 of differentiation) obtained a total of 1180 mRNA and 185 lncRNA; group B (treatment group on day 6 of differentiation and control group on day 0 of differentiation). A total of 1376 mRNA and 206 lncRNA were obtained. Finally, we processed the differential lncRNAs and mRNAs obtained in the two groups, and obtained 113 shared differential lncRNAs to further predict the targeted miRNA, a total of 815 lncRNA-miRNA pairs. The targeted mRNA was further predicted, and the grouped differential mRNAs were combined to obtain 64 differential mRNAs. In the end, we obtained 216 ceRNAs containing 26 lncRNAs, 27 miRNAs and 64 mRNAs. We found that the mRNAs in the ceRNA network were mainly enriched with 45 Gene Ontology (GO) terms, mainly including glucose homeostasis mechanism and insulin stimulation response. 69 Kyoto Encyclopedia of Genes and Genomes (KEGG) pathways were mainly enriched. It mainly includes many pathways related to lipid metabolism such as Adenosine 5′-monophosphate (AMP)-activated protein kinase (AMPK), Rap1, cAMP, mitogen-activated protein kinase (MAPK), Ras, hypoxia inducible factor-1 (HIF-1), PI3K-Akt, insulin signaling and so on. In the end, we identified 216 ceRNA regulatory relationships related to obesity research. Our research provides a clearer direction for understanding the molecular mechanism of obesity, the screening and determination of drug targets biomarkers in the future.



中文翻译:

基于人MSC细胞成脂分化的lncRNA表达谱构建成脂ceRNA网络

GEO数据库中人间充质干细胞(MSC)成脂分化0天、3天、6天等10个样本的Long non-coding RNA(lncRNA)表达谱数据,然后进行基因ID转换、BLAST比较、注释标记. 最后,A组(分化第3天治疗组和分化第0天对照组)共获得1180个mRNA和185个lncRNA;B组(分化第6天治疗组和分化第0天对照组)。共获得 1376 个 mRNA 和 206 个 lncRNA。最后,我们对两组得到的差异lncRNA和mRNA进行处理,得到113个共享的差异lncRNA,进一步预测目标miRNA,共815个lncRNA-miRNA对。进一步预测了靶向 mRNA,将分组后的差异mRNA合并,得到64个差异mRNA。最终,我们获得了 216 个 ceRNA,其中包含 26 个 lncRNA、27 个 miRNA 和 64 个 mRNA。我们发现 ceRNA 网络中的 mRNAs 主要富含 45 个基因本体 (GO) 术语,主要包括葡萄糖稳态机制和胰岛素刺激反应。69京都基因和基因组百科全书(KEGG)途径主要丰富。主要包括许多与脂质代谢相关的途径,如腺苷5′-一磷酸(AMP)激活蛋白激酶(AMPK)、Rap1、cAMP、丝裂原激活蛋白激酶(MAPK)、Ras、缺氧诱导因子-1(HIF- 1)、PI3K-Akt、胰岛素信号转导等。最后,我们确定了与肥胖研究相关的 216 个 ceRNA 调控关系。

更新日期:2021-07-24
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