Bioinformatics tool's to Predict regulatory elements / TFBS / miRs BS

Question

[cherifbenhamda]

Hello all,

I need help please, I want to know if there is a list of all bioinformatics tools 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.

[Devon Ryan]

Any such list would become almost instantly out of date.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?).

[cherifbenhamda]

Thank you for your reply.

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

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

Answer 1

[khorms]

Are you asking about regulatory elements in bacteria? My colleagues are developing a server for predicting regulatory elements and a database for predicted ones. Another useful program for this purpose is Genome Explorer. 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

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

[cherifbenhamda]

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 :).