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Identification of Crucial Genes and Pathways Associated with Atherosclerotic Plaque in Diabetic Patients

BACKGROUND: Patients with diabetes have more calcification in atherosclerotic plaque and a higher occurrence of secondary cardiovascular events than patients without diabetes. The objective of this study was to identify crucial genes involved in the development of diabetic atherosclerotic plaque usi...

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Autores principales: Li, Yuan-Yuan, Zhang, Sheng, Wang, Hua, Zhang, Shun-Xiao, Xu, Ting, Chen, Shu-Wen, Zhang, Yan, Chen, Yue
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Dove 2021
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7869704/
https://www.ncbi.nlm.nih.gov/pubmed/33568933
http://dx.doi.org/10.2147/PGPM.S281705
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author Li, Yuan-Yuan
Zhang, Sheng
Wang, Hua
Zhang, Shun-Xiao
Xu, Ting
Chen, Shu-Wen
Zhang, Yan
Chen, Yue
author_facet Li, Yuan-Yuan
Zhang, Sheng
Wang, Hua
Zhang, Shun-Xiao
Xu, Ting
Chen, Shu-Wen
Zhang, Yan
Chen, Yue
author_sort Li, Yuan-Yuan
collection PubMed
description BACKGROUND: Patients with diabetes have more calcification in atherosclerotic plaque and a higher occurrence of secondary cardiovascular events than patients without diabetes. The objective of this study was to identify crucial genes involved in the development of diabetic atherosclerotic plaque using a bioinformatics approach. METHODS: Microarray dataset GSE118481 was downloaded from the Gene Expression Omnibus (GEO) database; the dataset included 6 patients with diabetic atherosclerotic plaque (DBT) and 6 nondiabetic patients with atherosclerotic plaque (Ctrl). Differentially expressed genes (DEG) between the DBT and Ctrl groups were identified and then subjected to functional enrichment analysis. Based on the enriched pathways of DEGs, diabetic atherosclerotic plaque-related pathways were screened using the comparative toxicogenomics database (CTD). We then constructed a protein–protein interaction (PPI) network and transcription factor (TF)–miRNA–mRNA network. RESULTS: A total of 243 DEGs were obtained in the DBT group compared with the Ctrl group, including 85 up-regulated and 158 down-regulated DEGs. Functional enrichment analysis showed that up-regulated DEGs were mainly enriched in isoprenoid metabolic process, DNA-binding TF activity, and response to virus. Additionally, DEGs participating in the toll-like receptor signaling pathway were closely related to diabetes, carotid stenosis, and insulin resistance. The TF–miRNA–mRNA network showed that toll-like receptor 4 (TLR4), BCL2-like 11 (BCL2L11), and glutamate-cysteine ligase catalytic subunit (GCLC) were hub genes. Furthermore, TLR4 was regulated by TF signal transducer and activator of transcription 6 (STAT6); BCL2L11 was targeted by hsa-miR-24-3p; and GCLC was regulated by nuclear factor, erythroid 2 like 2 (NFE2L2). CONCLUSION: Identification of hub genes and pathways increased our understanding of the molecular mechanisms underlying the atherosclerotic plaque in patients with or without diabetes. These crucial genes (TLR4, BC2L11, and GCLC) might function as molecular biomarkers for diabetic atherosclerotic plaque.
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spelling pubmed-78697042021-02-09 Identification of Crucial Genes and Pathways Associated with Atherosclerotic Plaque in Diabetic Patients Li, Yuan-Yuan Zhang, Sheng Wang, Hua Zhang, Shun-Xiao Xu, Ting Chen, Shu-Wen Zhang, Yan Chen, Yue Pharmgenomics Pers Med Original Research BACKGROUND: Patients with diabetes have more calcification in atherosclerotic plaque and a higher occurrence of secondary cardiovascular events than patients without diabetes. The objective of this study was to identify crucial genes involved in the development of diabetic atherosclerotic plaque using a bioinformatics approach. METHODS: Microarray dataset GSE118481 was downloaded from the Gene Expression Omnibus (GEO) database; the dataset included 6 patients with diabetic atherosclerotic plaque (DBT) and 6 nondiabetic patients with atherosclerotic plaque (Ctrl). Differentially expressed genes (DEG) between the DBT and Ctrl groups were identified and then subjected to functional enrichment analysis. Based on the enriched pathways of DEGs, diabetic atherosclerotic plaque-related pathways were screened using the comparative toxicogenomics database (CTD). We then constructed a protein–protein interaction (PPI) network and transcription factor (TF)–miRNA–mRNA network. RESULTS: A total of 243 DEGs were obtained in the DBT group compared with the Ctrl group, including 85 up-regulated and 158 down-regulated DEGs. Functional enrichment analysis showed that up-regulated DEGs were mainly enriched in isoprenoid metabolic process, DNA-binding TF activity, and response to virus. Additionally, DEGs participating in the toll-like receptor signaling pathway were closely related to diabetes, carotid stenosis, and insulin resistance. The TF–miRNA–mRNA network showed that toll-like receptor 4 (TLR4), BCL2-like 11 (BCL2L11), and glutamate-cysteine ligase catalytic subunit (GCLC) were hub genes. Furthermore, TLR4 was regulated by TF signal transducer and activator of transcription 6 (STAT6); BCL2L11 was targeted by hsa-miR-24-3p; and GCLC was regulated by nuclear factor, erythroid 2 like 2 (NFE2L2). CONCLUSION: Identification of hub genes and pathways increased our understanding of the molecular mechanisms underlying the atherosclerotic plaque in patients with or without diabetes. These crucial genes (TLR4, BC2L11, and GCLC) might function as molecular biomarkers for diabetic atherosclerotic plaque. Dove 2021-02-04 /pmc/articles/PMC7869704/ /pubmed/33568933 http://dx.doi.org/10.2147/PGPM.S281705 Text en © 2021 Li et al. http://creativecommons.org/licenses/by-nc/3.0/ This work is published and licensed by Dove Medical Press Limited. The full terms of this license are available at https://www.dovepress.com/terms.php and incorporate the Creative Commons Attribution – Non Commercial (unported, v3.0) License (http://creativecommons.org/licenses/by-nc/3.0/). By accessing the work you hereby accept the Terms. Non-commercial uses of the work are permitted without any further permission from Dove Medical Press Limited, provided the work is properly attributed. For permission for commercial use of this work, please see paragraphs 4.2 and 5 of our Terms (https://www.dovepress.com/terms.php).
spellingShingle Original Research
Li, Yuan-Yuan
Zhang, Sheng
Wang, Hua
Zhang, Shun-Xiao
Xu, Ting
Chen, Shu-Wen
Zhang, Yan
Chen, Yue
Identification of Crucial Genes and Pathways Associated with Atherosclerotic Plaque in Diabetic Patients
title Identification of Crucial Genes and Pathways Associated with Atherosclerotic Plaque in Diabetic Patients
title_full Identification of Crucial Genes and Pathways Associated with Atherosclerotic Plaque in Diabetic Patients
title_fullStr Identification of Crucial Genes and Pathways Associated with Atherosclerotic Plaque in Diabetic Patients
title_full_unstemmed Identification of Crucial Genes and Pathways Associated with Atherosclerotic Plaque in Diabetic Patients
title_short Identification of Crucial Genes and Pathways Associated with Atherosclerotic Plaque in Diabetic Patients
title_sort identification of crucial genes and pathways associated with atherosclerotic plaque in diabetic patients
topic Original Research
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7869704/
https://www.ncbi.nlm.nih.gov/pubmed/33568933
http://dx.doi.org/10.2147/PGPM.S281705
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