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Questions tagged [cpg]

CpG refers to any cytosine nucleotide in DNA that neighbors a guanine. CpG site comes from "cytosine-phosphate-guanine site". These sites have the potential for a methyl (or other derivative) to be attached. Dense regions of CpG's are known as CpG islands.

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Observed to Expected CpG

Observed to Expected CpG is calculated as below : Obs/Exp CpG = Number of CpG * N / (Number of C * Number of G) where N = length of sequence. I also don't ...
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Does the consistency of Horvath's clock across different tissues suggest anything about aging?

Horvath's clock estimates the chronological age of people based on the methylation of 353 CpG sites. It is noted for its unprecedented accuracy (median error of 3.6 years) and consistency across ...
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what is CpG coverage? DNA starting material?

referring to this quote from an article about predicting methylation states: "Because of the small amounts of genomic DNA starting material per cell, single-cell methylation analyses are ...
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Can DNA Methylation data of different samples from Human Methylation 27 and 450 platforms be combined using common set of 25,978 CpG sites?

I am studying the Kidney Renal Clear Cell Carcinoma (TCGA-KIRC) data set of TCGA. The DNA methylation datatype has 200 samples from Human Methylation 27 platform and 300 samples from Human Methylation ...
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How does CpG island methylation lead to gene silencing?

I see often the blanket statement that CpG island methylation can lead to gene silencing. However, I have been unable to find a straightforward explanation of the mechanism by this. Is it a purely ...
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Why does the gc content deviate from 50% in prokaryotes

I have read quite some articles but I can't figure out the main reason for gc content deviation in prokaryotes. In eukaryotes I can understand it, because the genome isn't composed at random, like ...
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Gene silencing: relative or absolute number of methylated CpG sites?

CpG content varies a lot across the human genome. What does determine a promoter to be silenced through DNA methylation: the fraction of CpG sites that are methylated or the total number of methylated ...
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How correlated are proximally related CpG sites in human DNA?

Cytosine residues in DNA that can be methylated (i.e. CpG sites) are likely to be in the same methylation state if they are geographically (proximally) close together. I can only find one paper that ...