Identify lncRNAs - search for tools

Question

[JJ]

Hi all,

I am trying to look for tools which can identify lncRNAs - I have found the following so far:

• FEELnc
• lncScore
• UClncR

All are very early versions and they are all based on a transcript assembly with Stringtie/Cufflinks. Are there others out there? Are there other good tools for transcript assembly? I appreciate recommendations.

Thanks!

Answer 1

[Qingyang Xiao]

If the transcripts are not responsible for coding the proteins, then it's possibly lncRNA. So you can check databases like PFAM, CPC and PhyloCSF. The unmatched parts will provide you some insights of lncRNA.

[JJ]

Thanks but I am more looking for ready-to-use tools that can provide a classification e.g., lincRNA, antisense...