Has anyone heard if the Phenol/chlorophorm extraction of the DNA could have an effect on the methylation? Would it interfere with the bisulfit traitment? (I'm using the Epitect-BS from Qiagen)
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#2
methylnick
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Posted 02 February 2009 - 01:23 PM
Hi there,
it doesn't have an effect, if FFPE treated samples don't alter the methylation patterns then I would say phenol chloroform wouldn't either.
nick
it doesn't have an effect, if FFPE treated samples don't alter the methylation patterns then I would say phenol chloroform wouldn't either.
nick
#3
ForEpi
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Posted 03 February 2009 - 09:07 AM
Hi,
PC extraction should indeed have no effect as Weber (Weber, 2005) uses it to clean up his methylated DNA after his MeDIP procedure ...
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PC extraction should indeed have no effect as Weber (Weber, 2005) uses it to clean up his methylated DNA after his MeDIP procedure ...
B
I believe in the power of Selenium!!
#4
jacinthe
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Posted 03 February 2009 - 11:27 AM
Thank you both! I feel more confortable now using phenol/chloro for my DNA extraction (because I'm not very happy with my Qiagen kit!)
Jacinthe
Jacinthe
#5
et2b
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Posted 02 March 2009 - 06:30 AM
jacinthe, on Feb 3 2009, 08:27 PM, said:
Thank you both! I feel more confortable now using phenol/chloro for my DNA extraction (because I'm not very happy with my Qiagen kit!)
Jacinthe
Jacinthe
He you....CpG methylation is a covalent modification to the cytosine....it wont fall off
, No really it wont..... 
--> chemistry is a nice thingy, sometimesCells can actively Demethylated with some thingies (enzymes).....so when cells are death and protein denaturated you wont be risking your Cytosine methylation. So no worries
Hope it helps...
