20.500.12556/RUL-164868 In silico gene prioritization highlights the significance of bone morphogenetic protein 4 (BMP4) promoter methylation across all methylation clusters in colorectal cancer The cytosine–phosphate–guanine (CpG) island methylator phenotype (CIMP) represents one of the pathways involved in the development of colorectal cancer, characterized by genome-wide hypermethylation. To identify samples exhibiting hypermethylation, we used unsupervised hierarchical clustering on genome-wide methylation data. This clustering analysis revealed the presence of four distinct subtypes within the tumor samples, namely, CIMP-H, CIMP-L, cluster 3, and cluster 4. These subtypes demonstrated varying levels of methylation, categorized as high, intermediate, and very low. To gain further insights, we mapped significant probes from all clusters to Ensembl Regulatory build 89, with a specific focus on those located within promoter regions or bound regions. By intersecting the methylated promoter and bound regions across all methylation subtypes, we identified a total of 253 genes exhibiting aberrant methylation patterns in the promoter regions across all four subtypes of colorectal cancer. Among these genes, our comprehensive genome-wide analysis highlights bone morphogenic protein 4 (BMP4) as the most prominent candidate. This significant finding was derived through the utilization of various bioinformatics tools, emphasizing the potential role of BMP4 in colorectal cancer development and progression. DNA methylation promoter region bound region colorectal cancer CIMP metilacija DNA promotorska regija vezna regija karcinom kolorektuma true false true Angleški jezik Slovenski jezik Članek v reviji 2024-11-14 11:20:36 2024-11-14 11:20:42 2024-11-22 14:56:27 0000-00-00 00:00:00 2023 0 0 18 str. iss. 16, art. 12692 Vol. 24 2023 0000-00-00 Zaloznikova Objavljeno NiDoloceno 0000-00-00 0000-00-00 0000-00-00 616 1661-6596 10.3390/ijms241612692 161283331 ijms-24-12692.pdf ijms-24-12692.pdf 1 2424C166AEABDB12A3E157ABB6272ED3 8dabc5ae8a72f5be33780570a3d73d6a7809d3c9534c97a2a282db82e9e1e0c4 0fe2a9db-a272-11ef-b232-0050569b8976 https://repozitorij.uni-lj.si/Dokument.php?lang=slv&id=195665 https://www.mdpi.com/1422-0067/24/16/12692 1 bd3cd614-a271-11ef-b232-0050569b8976 https://repozitorij.uni-lj.si/Dokument.php?lang=slv&id=195663 Medicinska fakulteta 0 0 0