[BioC] NA geneSymbol with lumi
Sebastien Gerega
seb at gerega.net
Fri Nov 9 04:36:14 CET 2007
Hi,
I am using the lumi package to analyse illumina microarray data.
When it finally comes to getting the top 10 DE genes with topTable I get
many hits with
the geneSymbol <NA>. However, if I look up the ProbeID corresponding to
the nuID
that provide <NA>, I find that they do correspond to genes. Why aren't
they being
displayed in the topTable?
thanks,
Sebastien
ID geneSymbol logFC t P.Value
adj.P.Val B
1917 fwfUovXT3rjAjqbpJU S100A8 -5.307223 -50.43759 9.854174e-09
0.0001383625 8.724832
12632 Qd_S7V4OkLjsX3jkt4 KRT6B -5.281406 -39.54237 3.896317e-08
0.0002735409 8.229157
12149 BjSTT6BOqGLhpKKFGI <NA> -3.118669 -30.01505 1.844180e-07
0.0008631377 7.451766
7474 6ipCUUDxcp4ryIj6Uk <NA> -3.155916 -24.45685 5.835502e-07
0.0013366890 6.716048
3831 3nivfFfvk55Rd18lLk <NA> -2.690362 -24.10891 6.324511e-07
0.0013366890 6.659617
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