Interspecies gene name conversion
In this post, I'll provide a step-by-step guide to perform interspecies gene name conversion of gene expression data. This is a necessary step in the comparison of profiling data from two different experiments with different species (human and mouse), and allows us to use extensive human-centric gene set libraries in MSigDB when analysing non-human mammalian profiling data (such as mouse).
I performed GEO2R analysis of mouse expression data (GSE30192) to analyse the effect of azacitidine on mouse C2C12 myoblasts. The data looks like this:
"ID""adj.P.Val""P.Value""t""B""logFC""Gene.symbol""Gene.title"
"1420647_a_at" "0.000346" "2.24e-08" "56.073665" "8.699524" "6.9755573" "Krt8" "keratin 8"
"1423327_at" "0.000346" "2.32e-08" "55.685912" "8.686447" "3.8096523" "Rpl…
I performed GEO2R analysis of mouse expression data (GSE30192) to analyse the effect of azacitidine on mouse C2C12 myoblasts. The data looks like this:
"ID""adj.P.Val""P.Value""t""B""logFC""Gene.symbol""Gene.title"
"1420647_a_at" "0.000346" "2.24e-08" "56.073665" "8.699524" "6.9755573" "Krt8" "keratin 8"
"1423327_at" "0.000346" "2.32e-08" "55.685912" "8.686447" "3.8096523" "Rpl…