Question: Some genes don't map to entrezID
0
gravatar for Sharon
2.0 years ago by
Sharon460
Sharon460 wrote:

Hi every one

When some gene names fails to map to entrez ID when using GAGE and Kegg pathways, they are represented as NA. How can we fix this? Discarding them will remove too many genes that are important. When I try to map them myself, they usually have multiple names like this one (GPR64) or they are nc RNA like this (LOC116437)

Thanks

gage kegg pathways • 445 views
ADD COMMENTlink written 2.0 years ago by Sharon460

Which annotation did you use for this analysis?

ADD REPLYlink written 2.0 years ago by genomax77k

I used mapIds(org.Hs.eg.db) Here is a sample:

 symbol,logfc,adjpvalue
    HLA-DRB4,5.196415406,0.02376069902
    SCGB1A1,4.269985245,0.01861663475
    CST6,3.591334103,0.01391749469
    CTCFL,3.455911002,0.01218323434
    IGSF10,3.292159267,0.02287816294
    DPYS,3.205509049,0.02592945374
ADD REPLYlink written 2.0 years ago by Sharon460
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