DNA amplification for chip-on-chip - WGA or LM-PCR or others? (Oct/31/2007 )
QUOTE (Clare @ Jan 24 2008, 10:09 PM)
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I have completed my first hyb. It wasn't the nicest looking (as I stuffed up my hyb mix perhaps) but I did see some expected results. In my ChIP I used a H3K9 antibody and genes that I expected to be active, were - so that's a good start
I have completed my first hyb. It wasn't the nicest looking (as I stuffed up my hyb mix perhaps) but I did see some expected results. In my ChIP I used a H3K9 antibody and genes that I expected to be active, were - so that's a good start
we have done H3K9/K14 acetylation arrays using WGA and the arrays looks really good, even without replicates
its other antibodies that we are having trouble with, especially medip
-frozenlyse-
QUOTE (frozenlyse @ Jan 24 2008, 04:03 PM)
we have done H3K9/K14 acetylation arrays using WGA and the arrays looks really good, even without replicates
its other antibodies that we are having trouble with, especially medip
its other antibodies that we are having trouble with, especially medip
I know this is off topic - but how do you analyse your H3K9 arrays?
-Clare-
The problem with CpG rich regions might be more related to the hyb. conditions rather than the WGA. There is data compression with WGA, but over all this is working extremely well expect in CpG islands.
-tap14-