Hi Feng,

probe sets labelled with "_x" cross-hybridize to multiple genes:

http://www.affymetrix.com/support/help/faqs/mouse_430/faq_8.jsp

Genecards gives more detail for this probe set:

http://genecards.weizmann.ac.il/cgi-bin/geneannot/GA_search.pl?keyword_type=probe_set_id&array=HG-U133&target=genecards&keyword=200012_x_at

How to handle such a case depends on how interested you are in that probe
set; at the extremes you could ignore it, or follow up with PCR to
establish which transcript you are observing.

-Levi


On Mon, Jul 29, 2013 at 6:06 PM, Feng Tian <fengtian@bu.edu> wrote:

> Dear all,
>
> In the Affymetrix annotation file, I find that some probe set ID are mapped
> to multiple genes separated by '///', such as 200012_x_at is mapped
> to RPL21P16///RPL21P119///RPL21. How to handle this case?
>
> Thank you!
>
> Feng
>
>         [[alternative HTML version deleted]]
>
> _______________________________________________
> Bioconductor mailing list
> Bioconductor@r-project.org
> https://stat.ethz.ch/mailman/listinfo/bioconductor
> Search the archives:
> http://news.gmane.org/gmane.science.biology.informatics.conductor
>



-- 
Levi Waldron
Post-doctoral fellow
Department of Biostatistics, Harvard School of Public Health
Department of Biostatistics and Computational Biology, Dana-Farber Cancer
Institute
Building 1, room 412C
655 Huntington Avenue
Boston, Massachusetts 02115
mobile: (617) 851-6849
fax: (617) 432-5619
http://www.hsph.harvard.edu/research/levi-waldron/

	[[alternative HTML version deleted]]

