FPKM of Intergenic Regions

Hello,

I have read that people have used the expression of intergenic regions in order to threshold expression values. I would like to know if there is a way to get the expression values for the intergenic regions. I have seen some links such as the ones below:

http://biopython.org/wiki/Intergenic_regions

http://code.google.com/p/bedtools/wiki/Usage#subtractBed

However, I'm not sure where to go from here.

Any help would be appreciated!

Thanks!

rna-seq fpkm intergenic regions

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updated 4.8 years ago by Ram

• written 12.1 years ago by dennis.s.zhao •

I had a similar problem, did you see my previous post?

You need gene models to calculate average expression, so shuffling the GFF might help.

• 0 views • link

updated 4.8 years ago by Ram

• written 12.1 years ago by Michael Dondrup

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