How to find best probe in Affymetrix for putative genes?

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How to find best probe in Affymetrix for putative genes?

Postby Ewinia » Dec 20 2012 1:42 pm

Hi everyone,

I am woking on a gene family of tomato, and all the family mumber's CDS are all known . I want to find best probe in Affymetrix for expression profile analysis in Genevestigator, but I have no idea how to do?
I have seen a paper mentioned "The whole-genome sequences for tomato were used as query sequences to blast against all of the gene probe sequences from the Affymetrix Gene Chip (http://www.affymetrix.com/), and the best homologous probe was used to annotate the corresponding gene. Then, the identified helicase-containing probe IDs were selected by a Perl-based program and used as query sequences to perform searches in the tomato Gene Chip platform of Genevestigator".

Does anyone know how to do this? In NetAffx™ Analysis Center?

Thank you!

Best Regards
kevin
Ewinia
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