How to get all Long non-coding RNA expression data from TCGA
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I have downloaded Long nc RNA expression data from TANRIC (log2) for particular gene and now I want to scatter plot between lncRNA expression and mRNA expression. what would be the best way to plot them?
Thanks
What do you mean by mRNA expression? mRNA of what !!!
I want to plot and calculate correlation between Linc00589 & EGFR. for Linc00589 I have lnc RNA expression data from (TANRIC) and for EGFR mRNA expression from TCGA.
Why don't you use Linc00589 & EGFR expression data from same source. Like in your case use TCGA expression data (I guess it will have expression for both protein coding and lncRNAs too) and plot the correlation between these two transcripts.
Thanks
Yes, I also thinkng similar way and plotted expression, but I have one more gene "CASC11" which is not present in TCGA, So can I plot this with EGFR using different sources (TCGA & TANRIC)??
Actually, the lncRNA expressions in TANRIC website are from TCGA database.