Is it possible to show differential expression of genes using RNA seq by circos plot? Are there any specific guidelines or instructions to follow , I could not find anything specific for expression on Circos web page for expression. Thanks
If you don't mind it not being round, you could use the R/Bioconductor package called karyoploteR to represent differential expression data. At the tutorial and examples page there's an example using the data from the DESeq2 vignette and it has the whole code to go from DESeq2 results to a genome-wide plot of the differentially epressed genes using only R. The example uses Drosophila data, but it can be adapted to any other organism.
The plot looks like this, with the y-axis representing the fold change between conditions and the size of the bubble proportional to the p-value.
Hope this helps :)
The instruction will completely depend upon how you are planning to visualize the data. One way to visualize RNA-Seq data using circos is to mark the genes in chromosomes and add another circle repressing up regulation and download regulation using bars of different colors.
Example : https://www.researchgate.net/publication/259606369_RNA-sequencing_of_the_brain_transcriptome_implicates_dysregulation_of_neuroplasticity_circadian_rhythms_and_GTPase_binding_in_bipolar_disorder/figures?lo=1
Relevant discussion: https://groups.google.com/forum/#!topic/circos-data-visualization/PwOsxNL4iog