Tool: RNA secondary structure prediction
0
gravatar for kaur.devbio
5.6 years ago by
India
kaur.devbio0 wrote:

Hello,

Can anyone tell a tool which could predict the secondary structure of RNA which also take  pseudouridine pairing with adenine or any nucleotide  (A~ѱ, N- ѱ) in account.

rna-seq tool • 1.7k views
ADD COMMENTlink modified 5.6 years ago by Charles Warden7.8k • written 5.6 years ago by kaur.devbio0
0
gravatar for Charles Warden
5.6 years ago by
Charles Warden7.8k
Duarte, CA
Charles Warden7.8k wrote:

I don't know, but I would probably start by contacting the developers for the most popular RNA secondary structure prediction tools.  If this is a common request, maybe it is taken into consideration in the latest version of their program.

If it helps, I believe these are the most commonly used tools:

http://mfold.rna.albany.edu/?q=mfold

http://www.tbi.univie.ac.at/RNA/RNAfold.html

Alternatively, you can check if the same group has developed a different program that might address this issue (for example, I believe the developers of Mfold actually consider UNAfold to be a better option, but I don't recall why).

ADD COMMENTlink written 5.6 years ago by Charles Warden7.8k

Thanks for writing Charles Warden,

I already mailed to the developers of RNAfold as well as Mfold regarding the same issue bust still waiting for their response.

ADD REPLYlink written 5.6 years ago by kaur.devbio0
Please log in to add an answer.

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 805 users visited in the last hour