ReactomePA and genelist
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Merlin ▴ 10
@merlin-15723
Last seen 4.8 years 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 • 1.1k views
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@saicharanp18-20483
Last seen 20 months ago
United States

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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