Hi all,

I am performing a Co-IP experiment where would like to check the binding of my protein to the DNA of interest. I kept a control where I incubated the DNA and antibody only with the protein A/G beads, after which I performed PCR to amplify the DNA of my interest.

I am seeing the desired PCR bands even in the control. Is it possible that the protein A/G beads show some sort of nonspecific binding to my DNA of interest resulting in these bands? I found the following links mentioning nonspecific binding of DNA to Co-IP beads:

Article Chromatin Immunoprecipitation to Analyze DNA Binding Sites of HMGA2

https://wiki.zfin.org/display/prot/Chromatin+Immunoprecipitation+%28ChIP%29+Protocol+

https://cdn2.hubspot.net/hubfs/266350/Whitepapers/How_to_plan_an_immunoprecipitation_of_Myc-tagged_proteins.pdf?t=1496396328227

Any help is appreciated!

Thanks!

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