Question: Predict transcriptional regulation of new genome
gravatar for Benni
9 months ago by
Benni20 wrote:

I have the sequence of a Pseudomonas strain. I can predict transcription factors during annotation using EMBOSS. What I'm missing now is the prediction of transcription factor binding sites and the connection between both.

I think one way would be: Blast the TF against a curated database of a related strain and choose the best fitting TF with it interactions. Blast all the genes it's interacting with against my genome. This way I could map the interactions of the related strain to my strain.

But this would be a lot of work and I don´t know if there is a database to blast against. Is there maybe a tool, that can do that?

ADD COMMENTlink written 9 months ago by Benni20
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