Hi, I am using Gviz package for plotting DMRs. So far I have successfully created attrack, itrack and Genome axis tracks. I want to create a gtrack with gene annotation information. I have used the following code grtrack <- GeneRegionTrack(DMRs, genome = "hg19", chromosome = chr, name = "Genes", transcriptAnnotation = "symbol", background.title = "brown") plotTracks(list(itrack, gtrack, atrack, grtrack))

The working DMRs file is a Grange object which I have created from a CSV. My original CSV has following information id Chromosome Start End symbol mean.mean.diff ENSG00000272438 chr1 840214 851356 TNFRSF4 -0.036783899

Executing the above I am getting the plot but instead of gene symbol every gene is named as unknown. Can anyone help with that?

Hi, As you did not provided complete reproducible example code it is hard for me to help you. When executing the code below I get plot gene with corresponding symbol.

library(Gviz)
DMRs <- read.table(text="id Chromosome Start End symbol mean.mean.diff
ENSG00000272438 chr1 840214 851356 TNFRSF4 -0.036783899",
                   sep=" ", header=T)
DMRs <- as(DMRs, "GRanges")
grtrack <- GeneRegionTrack(DMRs, genome = "hg19", chromosome = "chr1", name = "Genes",
                           transcriptAnnotation = "symbol", background.title = "brown")
plotTracks(grtrack)

Best, Robert