Weird result with GOseq
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dlsoltero • 0
@dlsoltero-8803
Last seen 6.9 years ago
Mexico

I’m currently attempting to perform an analysis using GOseq on the up regulated genes of a RNAseq experiment. The thing is I keep getting a plot as the one I attached here, which is the mirror image of the one you would expect. Does someone have any insights into what may cause this? 

 

I did the analysis for a different RNAseq data and got a similar result only this time it happened for the downregulated genes. This data is from Arabidopsis thaliana, could that be it? I don't know if this would be normal o it indicated something wrong in the analysis.

Any insights would be much appreciated.

goseq • 776 views
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Hi! I know this is a bit late, but have you ever figured out why your plot looked like that? I obtained similar results with my data.

Except I'm working with bovine.

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@gordon-smyth
Last seen 3 hours ago
WEHI, Melbourne, Australia

I doubt anyone will be able to give you an explanation because it is presumably something specific to your dataset. I suggest you have to a close look at your data to determine what are the short genes (<1000bp) in your data and why 50% or more of them are DE.

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