[BioC] Agilent annotation package 4122a vs 4122f

Francois Pepin fpepin at cs.mcgill.ca
Mon Dec 15 17:10:49 CET 2008

Hi Klemens,

Yes, you are fine. The mgug4122a is named from the 1x44k mouse arrays. 
All of the non-control probes have the same names and corresponding 
sequences between the 4x44k and the 1x44k arrays. This also applies to 
hgug4112a on the human side.

The differences between the 4x44k and 1x44k relate to the nature of the 
control probes, the position of the probes and, in some cases, the 
number of times a probe is replicated on the array. None of this 
information is on the annotation package, so you are getting exactly 
what you want.


Klemens Vierlinger wrote:
> Dear List,
> I am using the Agilent 4x44k mouse expression arrays (cat# 4122f); the 
> closest match on the BioC annotation packages list is mgug4122a (which 
> is for the 1x44k chips). Can I use it? Its seems to be working fine, I 
> just wanted to know whether I had overlooked anything.
> thanks in advance
> All the Best
> Klemens

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