Question: Length of differentially methylated regions
1
gravatar for niutster
2.2 years ago by
niutster80
niutster80 wrote:

Hi,

I want to identify significant differentially methylated regions from a set of DMRs which has DMRs with length from 1 bp to 200 bp, which numbers of bps define a regions in biology? i need a threshold.

dmrs length genome • 730 views
ADD COMMENTlink modified 2.2 years ago by Devon Ryan91k • written 2.2 years ago by niutster80
1
gravatar for Devon Ryan
2.2 years ago by
Devon Ryan91k
Freiburg, Germany
Devon Ryan91k wrote:

Well, pretty much by definition a region will need to be more than one CpG, so 4 bases. In practice, most people use a minimum of 3 or more CpGs, meaning at least 6 bases.

ADD COMMENTlink written 2.2 years ago by Devon Ryan91k

Do you mean DMRs must contains at least 3 CpGs with any length or at Least 6 bp length and contain any desired CpG numbers?

ADD REPLYlink written 2.2 years ago by niutster80

3 CpG with any length (this is obviously never less than 6 bases) is a common usage. Using length as a threshold for definition isn't terribly useful without also setting some sort of CpG number threshold.

ADD REPLYlink written 2.2 years ago by Devon Ryan91k
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