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PostPosted: Thu Apr 19, 2012 12:18 am 
Hi
I did a promoter analysis by PAINT software (about genes involved in lipid metabolism) and predict several TFs that i think they are new at lipid metabolism. now I want to investigate these candidate TFs with GREAT. my goal is whether these TFs have a relationship with lipid metabolism genes (by gene ontology and some thing like this as well). my questions is:
1 - can i use GREAT to do this?
2 - how can i define regions of these TFs ?

if possible help me about it . i really need your help. thanks a lot in advance.

regards
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PostPosted: Thu Jul 18, 2013 11:49 am 
Site Admin
Hi,

I would recommend using the PRISM resource (http://bejerano.stanford.edu/prism) to ask if the TFs you have identified are involved in lipid metabolism. PRISM identifies conserved binding site of TFs and then applies GREAT to associate them with function. For a given TF, PRISM provides conserved regulatory elements, target genes and function.

Details regarding the work can be found in the work "PRISM offers a comprehensive genomic approach to transcription factor function prediction" at http://www.ncbi.nlm.nih.gov/pubmed/23382538".

Thanks,
Bejerano Team
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