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Typical DNA methylation landscape in mammals. The DNA methylation landscape of vertebrates is very particular compared to other organisms. In mammals, around 75% of CpG dinucleotides are methylated in somatic cells, [19] and DNA methylation appears as a default state that has to be specifically excluded from defined locations.
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MethBase is a database of DNA methylation data derived from next-generation sequencing data. [1] MethBase provides a visualization of publicly available bisulfite sequencing and reduced representation bisulfite sequencing experiments through the UCSC Genome Browser.
MethBase: database of DNA methylation data visualized on the UCSC Genome Browser; Minimotif Miner: database of short contiguous functional peptide motifs; Oncogenomic databases: a compilation of databases that serve for cancer research; PubMed: references and abstracts on life sciences and biomedical topics; RIKEN integrated database of mammals
DNA methylation is an epigenetic mechanism that can be studied with bioinformatics. Computational epigenetics [ 1 ] uses statistical methods and mathematical modelling in epigenetic research. Due to the recent explosion of epigenome datasets, computational methods play an increasing role in all areas of epigenetic research.
CpG depletion has been observed in the process of DNA methylation of Transposable Elements (TEs) where TEs are not only responsible in the genome expansion but also CpG loss in a host DNA. TEs can be known as "methylation centers" whereby the methylation process, the TEs spreads into the flanking DNA once in the host DNA.
DNA (cytosine-5)-methyltransferase 3A (DNMT3A) is an enzyme that catalyzes the transfer of methyl groups to specific CpG structures in DNA, a process called DNA methylation. The enzyme is encoded in humans by the DNMT3A gene. [5] [6] This enzyme is responsible for de novo DNA methylation. Such function is to be distinguished from maintenance ...
DNA is mostly methylated at a CpG site, which is a cytosine followed by a guanine. The “p” refers to the phosphate linker between them. The “p” refers to the phosphate linker between them. DMR usually involves adjacent sites or a group of sites close together that have different methylation patterns between samples.