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which array platform fro ChIP -chip + /-exaction program you prefer - sharing your ChIP-chip experience on TF and Histone modification (Jun/26/2008 )

Dear ChIP -chip Guys,

I used once ChIP-Chip custom service with which the Affymetrix arrays
and its peak exaction program have been applied.

Since Genome research ( Vol18 issue 3 2008) published one study which
made a comparison of d Affy, Nimbengen, Agilent arrays; and I could
like to perform another run ChIP -chip using different model organism
from first trial ( i.e. mouse ) ; could you like to be so kind to share any of
your experience /comment or expertise with us?

Thanks a lot !

YZ

-zy101-

QUOTE (zy101 @ Jun 26 2008, 05:44 PM)
Dear ChIP -chip Guys,

I used once ChIP-Chip custom service with which the Affymetrix arrays
and its peak exaction program have been applied.

Since Genome research ( Vol18 issue 3 2008) published one study which
made a comparison of d Affy, Nimbengen, Agilent arrays; and I could
like to perform another run ChIP -chip using different model organism
from first trial ( i.e. mouse ) ; could you like to be so kind to share any of
your experience /comment or expertise with us?

Thanks a lot !

YZ

We've being using Nimblegen and Illumina DNA methylation. Both gave results and were easy to handle and analyze. If you are comparing to expression data I recommend Illumina. Nimblegen expression sucks

-nanita-