ReactomePA and genelist
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Merlin ▴ 10
@merlin-15723
Last seen 21 months ago
Vancouver

Hello everyone, I want to use ReactomePA after have performed differential expression analysis. From the bioconductor webite the first codes to run are this

library(ReactomePA)
data(geneList)
de <- names(geneList)[abs(geneList) > 1.5]

Is it not clear to me what kind of "geneList" file is required to run this code? Can I use the output of DESeq2 ?

Thank you

ReactomePA • 333 views
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@saicharanp18-20483
Last seen 21 months ago

Yes, you can use gene names from deseq results. Provided ReactomePA cannot map using gene names or symbols. you should use gene ID's.

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