Question: Bioinformatics tool's to Predict regulatory elements / TFBS / miRs BS
0
gravatar for cherifbenhamda
4.5 years ago by
Tunisia
cherifbenhamda10 wrote:

Hello all,

I need help please, I want to know if there is a list of all bioinformatics tool's that can be used to predict regulatory elements / TFBS / miRs binding site.

I'm confused (I know that there's different tools using different algorithms, I want to know them all, to determine which one best suited to my work)

 

Thank you in advance.

ADD COMMENTlink modified 4.5 years ago by khorms30 • written 4.5 years ago by cherifbenhamda10

Any such list would become almost instantly out of date. Consequently, your best best is to just search the literature and look for papers doing comparisons of these. This will likely also allow you to avoid needing to do the comparisons yourself (why reinvent the wheel?).

ADD REPLYlink written 4.5 years ago by Devon Ryan89k

Thank you for your reply.

In reality I want to know if there is somthing like this  but up to date. 

for sure I'll look after in the literature #papers doing comparisons of these.

ADD REPLYlink written 4.5 years ago by cherifbenhamda10
2
gravatar for khorms
4.5 years ago by
khorms30
Moscow
khorms30 wrote:

Are you asking about regulatory elements in bacteria? My colleagues are developing a server for predicting regulatory elements (http://regpredict.lbl.gov/regpredict) and a database for predicted ones (http://regprecise.lbl.gov/RegPrecise/). Another useful program for this purpose is Genome Explorer (http://link.springer.com/article/10.1007%2FBF02759643#page-1). This program cannot be found on the Internet, but I have it on my PC, so I can send it to you :):)

For riboswitch prediction there is a useful Riboswitch Explorer server (http://132.248.32.45/cgi-bin/ribex.cgi )

Overall, a full list of tools you need can be very long, and I just suggested the tools which I used.

ADD COMMENTlink written 4.5 years ago by khorms30

Thank you so much for your help and for your suggestion.

I ask about about regulatory elements in bacteria and homosapiens too.

YES :) it interests me, please send it to me :).

ADD REPLYlink written 4.5 years ago by cherifbenhamda10
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: 1347 users visited in the last hour