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List:       bioconductor
Subject:    [BioC] Mouse exon array probes
From:       Richard Williams <rwilliams () uchicago ! edu>
Date:       2006-06-23 14:57:28
Message-ID: 20060623095728.ASK85861 () m4500-00 ! uchicago ! edu
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Hello,

We are working on creating a definition file for analyzing a 
mouse genomic array.  We are using the probe sets for the 
Affymetrix GeneChip® Mouse Exon 1.0 ST Array and have 
megablasted the probes against a copy of the most current 
build of the mouse genome (NCBI).  However, some of 
the contigs have very few matches and for 6 contigs, on the 
X chromosome, none at all.  

Has any one else experienced the same while using these 
Affymetrix probes?  Any information or advice will be 
greatly appreciated.

Thanks,
Rick


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