Study of the shared differentially expressed genes in peripheral blood mononuclear cells from systemic lupus erythematosus and pulmonary arterial hypertension
Study of the shared differentially expressed genes in peripheral blood mononuclear cells from systemic lupus erythematosus and pulmonary arterial hypertension
刘丽 1刘瑛琦 2郜赵伟1
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作者信息
1. 空军军医大学第二附属医院检验科，西安 710038
2. 空军军医大学基础医学院四大队，西安 710038
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摘要
目的 筛选系统性红斑狼疮(systemic lupus erythematosus, SLE)与肺动脉高压(pulmonary arterial hypertension, PAH)患者外周血单个核细胞(peripheral blood monocyte，PBMC)中的共有差异表达基因并分析其功能。 方法 在GEO数据库中筛选SLE数据集(GSE50772和GSE81622)和PAH数据集(GSE703和GSE131793)；筛选各数据集中的差异表达基因；筛选两组SLE数据集共有的差异表达基因，并利用DAVID进行功能分析；筛选PAH数据集共有差异表达基因并进行功能富集分析；筛选四组数据集中共有差异表达基因，并利用荧光定量PCR在临床样本中进行验证。 结果 SLE数据集-GSE50772和GSE81622共筛选出232个共有表达差异基因，其中156个基因表达上调，76个基因表达下调。功能分析显示，差异基因主要参与Ⅰ型干扰素信号通路、病毒基因组复制调控、免疫应答等生物过程；主要分子功能与寡腺苷酸合成酶活性、丝氨酸型肽链内切酶活性、核糖核酸酶活性及蛋白结合相关。PAH数据集-GSE703和GSE131793共筛选出18个表达差异基因。功能分析显示，差异基因主要参与细胞粘附、细胞基质粘附、细胞迁移等生物过程；主要分子功能与锚定蛋白及蛋白结合相关。SLE与PAH数据集共筛选出3个共有差异表达基因：PLSCR1、TCN2、S100A12。荧光定量PCR鉴定结果显示，在SLE和PAH患者PBMC中，S100A12表达水平上调(W＝194.50，P<0.05)。 结论 转录组数据分析和临床样本的实验验证表明S100A12在SLE和PAH患者PBMC中表达升高，提示S100A12可能在SLE并发PAH的过程中发挥作用。 Objective To screen the shared differentially expressed genes (DEGs) in peripheral blood mononuclear cells (PBMCs) of patients with systemic lupus erythematosus (SLE) and pulmonary arterial hypertension (PAH). Methods SLE datasets (GSE50772 and GSE81622) and PAH datasets (GSE703 and GSE131793) were screened from GEO database. Firstly, DEGs in each dataset were screened. Secondly, the shared DEGs in the two SLE datasets and in the two PAH datasets were screened respectively, and DAVID was used for functional analysis. Then, the shared DEGs among the four datasets were screened and verified by real-time fluorescence quantitative PCR (qRT-PCR) in clinical samples. Results A total of shared 232 DEGs (156 up-regulated and 76 down-regulated genes) were screened from SLE datasets. Functional analysis showed that these DEGs were mainly involved in type I interferon signaling pathway, viral genome replication regulation, immune response biological processes. The main molecular functions are related to oligosine synthase activity, serine endopeptidase activity, ribonuclease activity and protein binding. For PAH datasets, 18 shared DEGs were screened. Functional analysis showed that differential genes were mainly involved in cell adhesion, cell matrix adhesion, cell migration and other biological processes. The main molecular functions were related to anchored proteins and protein binding. Three shared DEGs(PLSCR1, TCN2 and S100A12), were screened from SLE and PAH datasets. qRT-PCR showed that S100A12expression were up-regulated in PBMC from SLE and PAH patients(W=194.50, P<0.05). Conclusion S100A12 expression were up-regulated in SLE and PAH patients.Based on GEO database and qRT-PCR in PBMC from clinical sample, the result demonstrated that S100A12 maybeinvolved in the process of SLE complicated with PAH.
Abstract
Objective To screen the shared differentially expressed genes (DEGs) in peripheral blood mononuclear cells (PBMCs) of patients with systemic lupus erythematosus (SLE) and pulmonary arterial hypertension (PAH). Methods SLE datasets (GSE50772 and GSE81622) and PAH datasets (GSE703 and GSE131793) were screened from GEO database. Firstly, DEGs in each dataset were screened. Secondly, the shared DEGs in the two SLE datasets and in the two PAH datasets were screened respectively, and DAVID was used for functional analysis. Then, the shared DEGs among the four datasets were screened and verified by real-time fluorescence quantitative PCR (qRT-PCR) in clinical samples. Results A total of shared 232 DEGs (156 up-regulated and 76 down-regulated genes) were screened from SLE datasets. Functional analysis showed that these DEGs were mainly involved in type I interferon signaling pathway, viral genome replication regulation, immune response biological processes. The main molecular functions are related to oligosine synthase activity, serine endopeptidase activity, ribonuclease activity and protein binding. For PAH datasets, 18 shared DEGs were screened. Functional analysis showed that differential genes were mainly involved in cell adhesion, cell matrix adhesion, cell migration and other biological processes. The main molecular functions were related to anchored proteins and protein binding. Three shared DEGs(PLSCR1, TCN2 and S100A12), were screened from SLE and PAH datasets. qRT-PCR showed that S100A12expression were up-regulated in PBMC from SLE and PAH patients(W=194.50, P<0.05). Conclusion S100A12 expression were up-regulated in SLE and PAH patients.Based on GEO database and qRT-PCR in PBMC from clinical sample, the result demonstrated that S100A12 maybeinvolved in the process of SLE complicated with PAH.
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