identify cis-elements in co-regulated genes - (Aug/14/2008 )

Hi, there

I found 5 C. elegans genes co-regulated under some treatment.
Now I 'd like to analyze cis-elements in these 5 co-regulated genes and identify the common TFs that might be involved.

I am looking for something like this http://dire.dcode.org/ but they don't have the database for the worms.

Could somebody give me some suggestions? Thanks a lot.

Use Transfac (http://www.gene-regulation.com) to search for Transcription factor binding sites in the promoter region of all 5 genes, record the position, and the number of occurrence.

Use chi-squared test, or other statistical method to identify statistically significantly overe-presented Transcription-factor binding sites, in this set (the 5 genes) vs other genes or random sequences.

You probably need to figure out a control set to compare against to show some cis-elements (transcription factor binding sites) might be common regulators of the 5 genes.