Compare ChIP to cell lysate - (Apr/15/2011 )

I am doing a chromatin immunoprecipitation and I would like to compare the amount of protein I purify with my antibody to the amount of the same protein left over in my cell lysate. I can't use a loading control because the ChIP will only have my protein of interest and nothing else to compare it to.

Thank You

you should just be able to do a regular old IP and compare your Input (either 1 or 10 percent) to what you pull down with your beads.......after washing the beads hit it with sample buffer, boil for 10min and run it on your gel. Doing that should get you a ballpark figure for how well your antibody IP's in cross-linked conditions.