Does anyone know where I can download genomic coordinates (chromosome, strand, start, end) for all probesets of this microarray? I was searching the Affy website for a couple of hours, can't find it. The microarray in question is:
Affymetrix GeneChip Mouse Genome 430 2.0 Array
Admittedly this is a very microarray-centric question, but the reason I'm asking is this: I want to check if genes detected by the microarray are also detected by HT-Sequencing (not RNA-Seq actually, but similar).
I.e. I want to know if genes detected by the microarray have also been detected by the HT-Sequencing. The question is just whether the same genes have been detected or not, NOT whether similar expression levels have been detected.
From the HT-Sequencing, I have coordinates of sequenced tags. I want to map them to some intermediate (RefSeq) and compare with expression levels from the probesets, which is data that I also have. Because directly comparing sequenced tags against probesets is not very informative I think.
Suggestions for alternative approaches are also very welcome.
Thanks.
Affymetrix GeneChip Mouse Genome 430 2.0 Array
Admittedly this is a very microarray-centric question, but the reason I'm asking is this: I want to check if genes detected by the microarray are also detected by HT-Sequencing (not RNA-Seq actually, but similar).
I.e. I want to know if genes detected by the microarray have also been detected by the HT-Sequencing. The question is just whether the same genes have been detected or not, NOT whether similar expression levels have been detected.
From the HT-Sequencing, I have coordinates of sequenced tags. I want to map them to some intermediate (RefSeq) and compare with expression levels from the probesets, which is data that I also have. Because directly comparing sequenced tags against probesets is not very informative I think.
Suggestions for alternative approaches are also very welcome.
Thanks.
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