Easy way to map Exon array probes to coordinates?
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wrighth ▴ 260
@wrighth-3452
Last seen 8.4 years ago
Hi, all; I am attempting to map data from an exon array experiment back to physical locations on the chromosomes. Is there an easy way to do this in Bioconductor? It doesn't look like the exonmap package exists anymore, and I'm not sure xps is the right thing (am looking at that now). If it helps, the data has already been analyzed, so I don't need to do anything complex in that realm; I'm just trying to track down where each probeset actually sits. Hollis Wright, PhD Knight Cancer Center Oregon Health and Science University
Cancer exonmap xps Cancer exonmap xps • 727 views
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cstrato ★ 3.9k
@cstrato-908
Last seen 4.3 years ago
Austria
Dear Hollis, Since xps uses the information contained in the Affymetrix probeset and transcript annotation files it could be used to map the probesets and transcripts to the chromosomal locations, however, it cannot be used to map the probes to the chromosomal locations. Best regards Christian _._._._._._._._._._._._._._._._._._ C.h.r.i.s.t.i.a.n S.t.r.a.t.o.w.a V.i.e.n.n.a A.u.s.t.r.i.a e.m.a.i.l: cstrato at aon.at _._._._._._._._._._._._._._._._._._ On 9/30/11 8:49 PM, Hollis Wright wrote: > Hi, all; I am attempting to map data from an exon array experiment back to physical locations on the chromosomes. Is there an easy way to do this in Bioconductor? It doesn't look like the exonmap package exists anymore, and I'm not sure xps is the right thing (am looking at that now). If it helps, the data has already been analyzed, so I don't need to do anything complex in that realm; I'm just trying to track down where each probeset actually sits. > > Hollis Wright, PhD > Knight Cancer Center > Oregon Health and Science University > _______________________________________________ > Bioconductor mailing list > Bioconductor at r-project.org > https://stat.ethz.ch/mailman/listinfo/bioconductor > Search the archives: http://news.gmane.org/gmane.science.biology.informatics.conductor >
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