[BioC] MGU74A and MGU74Av2

[Rafael A. Irizarry]

On Fri, 20 Jun 2003, Matthew Hobbs wrote:

> Hi,
> 
> I have some cel files from experiments using the Affy MGU74A chip and some 
> from experiments  using the MGU74Av2 chip.  Am I right in thinking that 
> MGU74A and MGU74Av2  are actually the same chip described differently  
> (because some probesets were originally designed wrongly)?  

my understanding is MGU74A had probes designed wrong. v2 is the fix.

> 
> I wish to treat all this data together.  Can I use theMGU74Av2 CDF to make a 
> single Affybatch object containing both sorts of data?   If not how should I 
> proceed?
> 

for sure, you dont want to use the probes that were sequenced wrong.
affymetrix can tell you which these are. im
cc-ing tom cappola and leslie cope who have worked closely with data
with this problems. 

> Thanks for any help.
> 
> -- 
> ----------------------------------------------------------------------
> Matthew Hobbs
> 
> Garvan Institute of Medical Research
> 384 Victoria St            Ph   : (02) 9295 8327
> Darlinghurst                
> http://www.garvan.org.au        email:  m.hobbs at garvan.org.au
> 
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