pseudogene in Microarray DEGs analysis

Question

[ewre]

Hi,all

recently I have found a lot of pseudogenes presented in my top100 DEGs list. mostly ribosomal gene pseudogenes(RPxxxPxxx). What I want to know is that how should I do with these pseudogenes, just filter them out of my list or do some analyze on it? could anyone give some advise on this.

many thanks..

[Manvendra Singh]

if its there then its there, why do you want to filter them out

[ewre]

Thanks for the reply.

I was looking for changes in the protein coding genes. How can I interpret them if they are not responsible for the actual protein products?

[marina.v.yurieva]

Depends on your question. If you are looking only at the protein-coding genes then filter them out. If not then you'll have to take them into account.

[ewre]

got it.

But I am wandering if the presentation of those RP psuedogenes enhanced the belief that the expression of the RP genes has been disturbed in my analysis assuming that those pseudogenes have almostly the same expression regulation sequences with their normal RP gene conjugators.