REDUCE Suite

General Category => General Discussion => Topic started by: amanzour on September 17, 2019, 10:48:43 pm

Title: TB binding site binding affinity compared to mutant
Post by: amanzour on September 17, 2019, 10:48:43 pm

Hi
How can I calculate the change between binding affinity of a transcription factor binding site and its corresponding mutated version of it. TF protein is known.
Would it be possible to do it web based?
Basically inputting: Sequence, mutant, TF and outputting change in TF binding affinity

Thank you so much beforehand

Title: Re: TB binding site binding affinity compared to mutant
Post by: xiangjun on September 18, 2019, 09:36:42 pm

Thanks for using the REDUCE Suite and for posting your questions on the Forum.

Unfortunately, I do not know how to calculate the change in binding affinity between wild and mutated sites of a TF binding site. Currently, the REDUCE Suite is command-line based only, no web interface to it.

Best regards,

Xiang-Jun

Title: Re: TB binding site binding affinity compared to mutant
Post by: amanzour on October 01, 2019, 05:16:41 pm

Thank you Lu.

How can I install Reducesuite?
are there a series of command line for linux?
Thank you
Amir

Title: Re: TB binding site binding affinity compared to mutant
Post by: xiangjun on October 01, 2019, 09:16:05 pm

Did you read the Documentation Section (http://reducesuite.bussemakerlab.org/documentation/)?