兰州大学机构库
Transcriptome-wide analysis reveals the coregulation of RNA-binding proteins and alternative splicing genes in the development of atherosclerosis
Wang, Runqing1,2,3; Xu, Jin1,2,3; Tang, Yuning1,2,3,4; Wang, Yongxiang1,2,3,5; Zhao, Jing1,2,3,5; Ding, Liqiong2,3,5; Peng, Yu2,3,5; Zhang, Zheng1,2,3,5
2023-01-31
Source PublicationScientific Reports   Impact Factor & Quartile Of Published Year  The Latest Impact Factor & Quartile
ISSN2045-2322
Volume13Issue:1
page numbers12
AbstractRNA-binding proteins (RBPs) are involved in the regulation of RNA splicing, stability, and localization. How RBPs control the development of atherosclerosis, is not fully understood. To explore the relevant RNA-binding proteins (RBPs) and alternative splicing events (ASEs) in atherosclerosis. We made a comprehensive work to integrate analyses of differentially expressed genes, including differential RBPs, and variable splicing characteristics related to different stages of atherosclerosis in dataset GSE104140. A total of 3712 differentially expressed genes (DEGs) were identified, including 2921 upregulated genes and 791 downregulated genes. Further analysis screened out 54 RBP genes, and 434 AS genes overlapped DEGs. We selected high expression ten RBP genes (SAMHD1, DDX60 L, TLR7, RBM47, MYEF2, RNASE6, PARP12, APOBEC3G, SMAD9, and RNASE1) for co-expression analysis. Meanwhile, we found seven regulated alternative splicing genes (RASGs) (ABI1, FXR1, CHID1, PLEC, PRKACB, BNIP2, PPP3CB) that could be regulated by RBPs. The co-expression network was used to further elucidate the regulatory and interaction relationship between RBPs and AS genes. Apoptotic process and innate immune response, revealed by the functional enrichment analysis of RASGs regulated by RBPs were closely related to atherosclerosis. In addition, 26 of the 344 alternative splicing genes regulated by the above 10 RBPs were transcription factors (TFs), We selected high expression nine TFs (TFDP1, RBBP7, STAT2, CREB5, ERG, ELF1, HMGN3, BCLAF1, and ZEB2) for co-expression analysis. The target genes of these TFs were mainly enriched in inflammatory and immune response pathways that were associated with atherosclerosis. indicating that AS abnormalities of these TFs may have a function in atherosclerosis. Furthermore, the expression of differentially expressed RBPs and the alternative splicing events of AS genes was validated by qRT-PCR in umbilical vein endothelial cells (HUVEC). The results showed that RBM47 were remarkedly difference in HUVEC treated with ox-LDL and the splicing ratio of AS in BCLAF1which is regulated by RBM47 significantly changed. In conclusion, the differentially expressed RBPs identified in our analysis may play important roles in the development of atherosclerosis by regulating the AS of these TF genes.
PublisherNATURE PORTFOLIO
DOI10.1038/s41598-022-26556-6
Indexed BySCIE
Language英语
WOS Research AreaScience & Technology - Other Topics
WOS SubjectMultidisciplinary Sciences
WOS IDWOS:000985232500058
Original Document TypeArticle
PMID 3672095
Citation statistics
Document Type期刊论文
Identifierhttps://ir.lzu.edu.cn/handle/262010/530325
Collection兰州大学
第一临床医学院
第二临床医学院
Corresponding AuthorZhang, Zheng
Affiliation
1.Lanzhou Univ, Sch Clin Med 1, Lanzhou, Gansu, Peoples R China;
2.Lanzhou Univ, Hosp 1, Gansu Key Lab Cardiovasc Dis, Lanzhou, Gansu, Peoples R China;
3.Lanzhou Univ, Hosp 1, Gansu Clin Med Res Ctr Cardiovasc Dis, Lanzhou, Gansu, Peoples R China;
4.Lanzhou Univ Second Hosp, Dept Cardiol, Lanzhou, Peoples R China;
5.Lanzhou Univ, Hosp 1, Heart Ctr, Lanzhou, Gansu, Peoples R China
First Author AffilicationFirst Clinical School
Corresponding Author AffilicationFirst Clinical School
First Signature AffilicationFirst Clinical School
Recommended Citation
GB/T 7714
Wang, Runqing,Xu, Jin,Tang, Yuning,et al. Transcriptome-wide analysis reveals the coregulation of RNA-binding proteins and alternative splicing genes in the development of atherosclerosis[J]. Scientific Reports,2023,13(1).
APA Wang, Runqing.,Xu, Jin.,Tang, Yuning.,Wang, Yongxiang.,Zhao, Jing.,...&Zhang, Zheng.(2023).Transcriptome-wide analysis reveals the coregulation of RNA-binding proteins and alternative splicing genes in the development of atherosclerosis.Scientific Reports,13(1).
MLA Wang, Runqing,et al."Transcriptome-wide analysis reveals the coregulation of RNA-binding proteins and alternative splicing genes in the development of atherosclerosis".Scientific Reports 13.1(2023).
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