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Genome Research
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Data sources: UnpayWall
Genome Research
Article . 2001 . Peer-reviewed
Data sources: Crossref
Genome Research
Article . 2002
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Enzymatic Regional Methylation Assay: A Novel Method to Quantify Regional CpG Methylation Density

Authors: Oliver, Galm; Michael R, Rountree; Kurtis E, Bachman; Kam-Wing, Jair; Stephen B, Baylin; James G, Herman;

Enzymatic Regional Methylation Assay: A Novel Method to Quantify Regional CpG Methylation Density

Abstract

We have developed a novel quantitative method for rapidly assessing the CpG methylation density of a DNA region in mammalian cells. After bisulfite modification of genomic DNA, the region of interest is PCR amplified with primers containing two dam sites (GATC). The purified PCR products are then incubated with 14C-labeled S-adenosyl-L-methionine (SAM) and dam methyltransferase as an internal control to standardize DNA quantity. This is followed by an incubation with 3H-labeled SAM and SssI methyltransferase for methylation quantification. By use of standard mixtures of cell line DNA with a defined methylation status in every assay, the ratio (3H/14C signal) of each sample can be converted into percentage values to assess the methylation density of the amplified sequence. This methylation-sensitive technique, termed ERMA (Enzymatic Regional Methylation Assay) provides several advantages over existing methods used for methylation analysis as it determines an exact measurement of the methylation density of the region studied. We demonstrate a use of this technique in determining the methylation density of the promoter region of the tumor suppressor genep15INK4B and changes that occur after treatment with demethylating agents.

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Keywords

S-Adenosylmethionine, Site-Specific DNA-Methyltransferase (Adenine-Specific), DNA-Cytosine Methylases, Tumor Suppressor Proteins, Cell Cycle Proteins, HL-60 Cells, DNA, Neoplasm, DNA Methylation, Tumor Cells, Cultured, Humans, CpG Islands, Genes, Tumor Suppressor, Promoter Regions, Genetic, Cyclin-Dependent Kinase Inhibitor p16, Cyclin-Dependent Kinase Inhibitor p15

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    popularity
    This indicator reflects the "current" impact/attention (the "hype") of an article in the research community at large, based on the underlying citation network.
    Average
    influence
    This indicator reflects the overall/total impact of an article in the research community at large, based on the underlying citation network (diachronically).
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    impulse
    This indicator reflects the initial momentum of an article directly after its publication, based on the underlying citation network.
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selected citations
These citations are derived from selected sources.
This is an alternative to the "Influence" indicator, which also reflects the overall/total impact of an article in the research community at large, based on the underlying citation network (diachronically).
BIP!Citations provided by BIP!
popularity
This indicator reflects the "current" impact/attention (the "hype") of an article in the research community at large, based on the underlying citation network.
BIP!Popularity provided by BIP!
influence
This indicator reflects the overall/total impact of an article in the research community at large, based on the underlying citation network (diachronically).
BIP!Influence provided by BIP!
impulse
This indicator reflects the initial momentum of an article directly after its publication, based on the underlying citation network.
BIP!Impulse provided by BIP!
36
Average
Top 10%
Top 10%
bronze