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Bioinformatics analysis identifies aging/senescence-induced genes in calcified plaques

YAO Hai-Peng, QIAN Yong-Jiang, WANG Zhong-Qun^*

Department of Cardiology, the Affiliated Hospital of Jiangsu University, Zhenjiang 212000, China

Abstract

Vascular calcification is an important pathophysiological basis of cardiovascular disease with its underlying mechanism unclear. In recent years, studies have shown that aging is one of the risk factors for vascular calcification. The purpose of this study was to investigate the microenvironmental characteristics of vascular calcification, identify aging/senescence-induced genes (ASIGs) closely related to calcified plaques, and explore the evolution trajectory of vascular calcification cell subsets. Based on the bioinformatics method, the single cell transcriptome sequencing data (Gene Expression Omnibus: GSE159677) of carotid artery samples from 3 patients undergoing carotid endarterectomy were grouped and annotated. Vascular calcification-related aging genes were identified by ASIGs data set. The pseudotime trend of ASIGs in cell subsets was analyzed by Monocle 3, and the evolution of vascular calcification cells was revealed. After quality control, all cells were divided into 8 cell types, including B cells, T cells, smooth muscle cells, macrophages, endothelial cells, fibroblasts, mast cells, and progenitor cells. Ten ASIGs related to vascular calcification were screened from the data set of ASIGs, which include genes encoding complement C1qA (C1QA), superoxide dismutase 3 (SOD3), lysozyme (LYZ), insulin-like growth factor binding protein-7 (IGFBP7), complement C1qB (C1QB), complement C1qC (C1QC), Caveolin 1 (CAV1), von Willebrand factor (vWF), clusterin (CLU), and αB-crystallin (CRYAB). Pseudotime analysis showed that all cell subsets were involved in the progression of vascular calcification, and these ASIGs may play an important role in cell evolution. In summary, AGIS plays an important role in the progression of vascular calcification, and these high expression genes may provide ideas for early diagnosis and treatment of vascular calcification.

Key words: Senescence; vascular calcification; bioinformatics; pseudotime analysis

Received: 　　Accepted:

Corresponding author: 王中群　　E-mail: wangtsmc@126.com; wangzhongqun@ujs.edu.cn

Citing This Article：

YAO Hai-Peng, QIAN Yong-Jiang, WANG Zhong-Qun. Bioinformatics analysis identifies aging/senescence-induced genes in calcified plaques. Acta Physiol Sin 2022; 74 (6): 939-948 (in Chinese with English abstract).