I am currently looking for techniques or assays to determine if a particular transcription factor binds to the promoter of my gene of interest. I am aware of CHiP, but that is extremely expensive. I wanted to avoid EMSA considering it's pretty tedious. Is there a simple assay that can detect protein DNA interaction?What is the cheapest method for determining protein DNA interactions?
EMSA are probably the cheapest and not that hard. You can even use the ethidium bromide way instead of radioisotopes although it's not as good.
A more difficult way would be to pull out a protein using a biotinylated nucleic acid and then doing a western. Reviewers will not like this method though.
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