Entering edit mode
3.2 years ago
Dear colleagues, I have two RNAseq datasets of two different diseases from different populations. My hypothesis is that they share the clinical picture because they share a genetic signature. I mean by that both diseases share for example differentially expressed genes, can I conclude that they share the same genetic signature? Are there other ways to prove this with this RNAseq dataset?
you can do just a heatmap of the top 100 most variable genes over a subset of a few conditions and see which cluster and which GO terms overlap. this is pretty much what they do for pan-cancer analyses.
Hello, can you clarify what data you currently have? - just RNA-seq?
No, I do not think that you can conclude this. There could be other epigenetic effects at play.
it is just RNAseq data from GEOdata. I can look for other types of data if there is a way to prove it
I see - thank you. Can you clarify this statement: "My hypothesis is that they share the clinical picture because they share a genetic signature" ? - you have proof that they have the same genetic signature, or you are literally just making this conclusion based on the gene expression (RNA-seq) data?
I mean I want to find a genetic link between two diseases using RNAseq data that I have. Is there a specific analysis for this?. I have not done any analysis yet. Is it enough to suggest this if both diseases share the same DEG?
First of all, "prove" is a dirty word in science. I'm a bit alarmed that a trained physician would keep using that term.
I agree with you. changed to "suggested"