Agricultural Institute of Slovenia, Hacquetova ulica 17, SI-1000 Ljubljana, Slovenia.
Institute of Pathology, Faculty of Medicine, University of Ljubljana, Korytkova 2, SI-1000 Ljubljana, Slovenia.
Genes (Basel). 2024 Apr 24;15(5):535. doi: 10.3390/genes15050535.
Cell-free DNA (cfDNA) has recently emerged as a promising minimally invasive diagnostic biomarker for various cancers. In this study, our aim was to identify cfDNA biomarkers by investigating genes that displayed significant differences between glioma patients and their corresponding controls. To accomplish this, we utilized publicly available data from the Gene Expression Omnibus, focusing on 5-hydroxymethylcytosine (5hmC) profiles in both cfDNA and genomic DNA (gDNA) from glioma patients and healthy individuals. The intersection of gene lists derived from these comparative analyses unveiled and as the two genes with elevated 5hmC levels in both the cfDNA of glioma patients and gDNA of glioma tissue compared to their respective controls. The gene expression data revealed both genes were upregulated in glioma tissue compared to normal brain tissue. Integration of 5hmC data revealed a strong positive correlation in the glioma tissue group between 5hmC and the gene expression of the gene. Furthermore, exploration using the AmiCa web tool indicated that gene expression was elevated compared to 17 other cancers included in the database, emphasizing its potential as a distinctive biomarker across multiple cancer types.
游离 DNA（cfDNA）最近作为一种有前途的微创诊断生物标志物在各种癌症中出现。在这项研究中，我们的目的是通过研究在胶质瘤患者与其相应对照之间显示出显著差异的基因来识别 cfDNA 生物标志物。为了实现这一目标，我们利用了来自基因表达综合数据库（Gene Expression Omnibus）的公开数据，重点研究了胶质瘤患者的 cfDNA 和基因组 DNA（gDNA）中的 5-羟甲基胞嘧啶（5hmC）谱。这些比较分析得出的基因列表的交集揭示了 和 这两个基因在胶质瘤患者的 cfDNA 和胶质瘤组织的 gDNA 中都表现出 5hmC 水平升高，与各自的对照相比。基因表达数据显示，与正常脑组织相比，这两个基因在胶质瘤组织中均上调。5hmC 数据的整合表明，在胶质瘤组织组中，基因的 5hmC 和基因表达之间存在强烈的正相关。此外，使用 AmiCa 网络工具进行的探索表明，与数据库中包含的 17 种其他癌症相比，基因表达水平升高，强调了它作为一种在多种癌症类型中具有独特性的生物标志物的潜力。
