Hi there
Can you possibly tell me where I can find the genes to match the probe IDs for the PETACC3 (https://www.synapse.org/#!Synapse:syn4974667) dataset please?
Best wishes
Erin
Created by Erin Cumming erinc641 Hi Carlos
I wonder whether can I get same answer using method "mapIds" in the R package org.Hs.eg.db
Cause it's difficult for me to use the R package BioMart
Best regards
Wang Hi Wang,
This is because genes are in Entrez Gene id, you can quickly annotate them into Hugo Symbols using the R package BioMart https://bioconductor.org/packages/release/bioc/html/biomaRt.html
I hope this solves your problem
Best regards
Carlos
Hi there
Why are the genenames obtained by method "CMSclassifier::listModelGenes("RF")" numbers? like "6423,"2619"......
How can I get the genename symbols? like "ABCA3", "AGR2"
Best wishes
Wang Hi Erin,
You can anotate the ID probes to genes using bioMart (https://bioconductor.org/packages/release/bioc/vignettes/biomaRt/inst/doc/accessing_ensembl.html) the arrays than they use in this dataset are Human Genome U133 Plus 2.0 Array which probes are inside the package
I hope this can solve you problem
Carlos