Finding out if non-coding transcripts from CPAT are tissue specific?

Question

[AB]

Hi Everyone,

I am working with RNA-Seq data and I am trying to find unknown lncRNA's. I used CPAT to find the coding potential of the transcripts. Is there any way to find out if any of them are tissue specific?

Thanks

Answer 1

[poisonAlien]

I don't think there is any way you can say if its a tissue specific linc just by looking coding potential score. Coding potential is just one criterion to filter out possible coding transcripts (maybe formed from splicing events from protein coding genes). Take a look at MiTranscriptome, maybe the linc that you have found might be there in any of the TCGA or other tissues.