{"title":"Deregulation of TWIST1 expression by promoter methylation in gastrointestinal cancers","authors":"","doi":"10.1016/j.sjbs.2023.103842","DOIUrl":null,"url":null,"abstract":"<div><p><em>TWIST1</em>, a basic helix-loop-helix transcription factor with versatile roles in cancer, is frequently deregulated in cancers, through established pathway perturbations. However. the significance of <em>TWIST1</em> methylation in the deregulation of <em>TWIST1</em> in gastrointestinal cancers is not fully clear. This study hypothesized that <em>TWIST1</em> promoter methylation deregulates <em>TWIST1</em> expression independent of established deregulators such as the <em>WNT</em>, <em>TGFB</em>, <em>NOTCH</em> and miRNA pathways. To prove this hypothesis, colon, gastric and rectal cancer genomic data comprising gene expression, DNA methylation, and miRNA data were retrieved from the Cancer Genome Atlas cohorts which are publicly available in cancer genomic databases, the Genome Data Commons and the <span><span>cBioportal.org</span><svg><path></path></svg></span>. About 217 variables comprising expression levels of genes of the <em>WNT</em>, <em>TGFB</em>, <em>NOTCH</em> and miRNA signalling pathways, as well as the beta values of 17 <em>TWIST1</em> methylation loci were subjected to Principal Component Regression Analysis, and then standard Linear Regression Analysis. The results showed that <em>TWIST1</em> methylation is a predictor of <em>TWIST1</em> expression in the gastrointestinal cancers, independent of <em>WNT</em>, <em>TGFB</em>, and <em>NOTCH</em> signalling and miRNA deregulation. The results also showed that different <em>TWIST1</em> methylation loci may deregulate <em>TWIST1</em> expression in different cancer types. The inference that can be drawn from this study is that <em>TWIST1</em> DNA methylation is an important <em>TWIST1</em> deregulation mechanism in colon, rectal and gastric cancers.</p></div>","PeriodicalId":21540,"journal":{"name":"Saudi Journal of Biological Sciences","volume":"31 8","pages":"Article 103842"},"PeriodicalIF":4.4000,"publicationDate":"2024-08-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.sciencedirect.com/science/article/pii/S1319562X23002875/pdfft?md5=d89e58d838f933e0b0cfa26bac1f0542&pid=1-s2.0-S1319562X23002875-main.pdf","citationCount":"0","resultStr":null,"platform":"Semanticscholar","paperid":null,"PeriodicalName":"Saudi Journal of Biological Sciences","FirstCategoryId":"99","ListUrlMain":"https://www.sciencedirect.com/science/article/pii/S1319562X23002875","RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":null,"EPubDate":"","PubModel":"","JCR":"Q1","JCRName":"Agricultural and Biological Sciences","Score":null,"Total":0}
引用次数: 0
Abstract
TWIST1, a basic helix-loop-helix transcription factor with versatile roles in cancer, is frequently deregulated in cancers, through established pathway perturbations. However. the significance of TWIST1 methylation in the deregulation of TWIST1 in gastrointestinal cancers is not fully clear. This study hypothesized that TWIST1 promoter methylation deregulates TWIST1 expression independent of established deregulators such as the WNT, TGFB, NOTCH and miRNA pathways. To prove this hypothesis, colon, gastric and rectal cancer genomic data comprising gene expression, DNA methylation, and miRNA data were retrieved from the Cancer Genome Atlas cohorts which are publicly available in cancer genomic databases, the Genome Data Commons and the cBioportal.org. About 217 variables comprising expression levels of genes of the WNT, TGFB, NOTCH and miRNA signalling pathways, as well as the beta values of 17 TWIST1 methylation loci were subjected to Principal Component Regression Analysis, and then standard Linear Regression Analysis. The results showed that TWIST1 methylation is a predictor of TWIST1 expression in the gastrointestinal cancers, independent of WNT, TGFB, and NOTCH signalling and miRNA deregulation. The results also showed that different TWIST1 methylation loci may deregulate TWIST1 expression in different cancer types. The inference that can be drawn from this study is that TWIST1 DNA methylation is an important TWIST1 deregulation mechanism in colon, rectal and gastric cancers.
期刊介绍:
Saudi Journal of Biological Sciences is an English language, peer-reviewed scholarly publication in the area of biological sciences. Saudi Journal of Biological Sciences publishes original papers, reviews and short communications on, but not limited to:
• Biology, Ecology and Ecosystems, Environmental and Biodiversity
• Conservation
• Microbiology
• Physiology
• Genetics and Epidemiology
Saudi Journal of Biological Sciences is the official publication of the Saudi Society for Biological Sciences and is published by King Saud University in collaboration with Elsevier and is edited by an international group of eminent researchers.