[BioC] Howto Get GO/Gene-names of GEO-Soft Probe-names
cei at sanger.ac.uk
Sun Jul 27 13:05:16 CEST 2008
Those probes are from the GNF mouse custom affymetrix array, and are as
such not directly supported in bioconductor. But, you can easily construct
an annotation package for this chip. Check out the vignette for SQLForge
that comes with:
You will need to prepare a text file with 2 columns, in the first the
probe id and in the second a commonly used gene/transcript identifier such
as Entrez, GeneBank, RefSeq... you can get this information directly from
the NCBI or from the GNF website.
On Sun, 27 Jul 2008, Gundala Viswanath wrote:
> Dear all,
> I have the following probe names selected from a dataset (GDS592),
> taken from GEO (SOFT format).
> And I want to get the GO term and Official Gene Name from these
> probe names.
> Is there a way to do it?
> I tried these two Bioconductor commands but fail.
> Please advice.
> - Gundala Viswanath
> Jakarta - Indonesia
> Bioconductor mailing list
> Bioconductor at stat.math.ethz.ch
> Search the archives: http://news.gmane.org/gmane.science.biology.informatics.conductor
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