Hi All
I am doing a motif search analysis using RSAT website. So far RSAT only returns me overrepresented motifs but it does not return me the genes that are related to the enrichment of the found motifs. Please guide me on how I can get the genes associated with those motifs. The procedure I am following is :
a) collect the 500bp upstream sequences of all genes for my organism
b) create backgroundmodel (5mers) using this fasta file in RSAT
c) collect the 500bp upstream sequences of all significantly differentially regulated genes in my experiment vs control group and create another fasta file
d) next feed this file into RSAT where it outputs significantly enriched motifs in the significantly enriched fasta file compared to the background model.
After this step .. I want to know what genes contributed to these significantly enriched motifs.
Any suggestions are greatly appreciated.
I am doing a motif search analysis using RSAT website. So far RSAT only returns me overrepresented motifs but it does not return me the genes that are related to the enrichment of the found motifs. Please guide me on how I can get the genes associated with those motifs. The procedure I am following is :
a) collect the 500bp upstream sequences of all genes for my organism
b) create backgroundmodel (5mers) using this fasta file in RSAT
c) collect the 500bp upstream sequences of all significantly differentially regulated genes in my experiment vs control group and create another fasta file
d) next feed this file into RSAT where it outputs significantly enriched motifs in the significantly enriched fasta file compared to the background model.
After this step .. I want to know what genes contributed to these significantly enriched motifs.
Any suggestions are greatly appreciated.
