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Genomic Regions that variate randomly to Antibody Binding

Dear Community,

am wondering if any of you know if there are specific genomic regions that are highly variable to antibody binding. I need to use a negative control in order to compare different sequencing techniques and am searching for such genomic regions to use as a negative control.

It would be very appreciated if any of you have an idea.

Best

chip-seq variable regions negative controls
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updated by pld pld • written by fusion.slope fusion.slope

Could you clarify what you mean by "variable to antibody binding"?

What kind of antibody are we talking about? (e.g. pan-IgG control; an actual DNA-specific antibody; a chromatin/TF antibody, other?)

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written by jotan jotan

This means that what ever Antibody one can use tho ChIP, you will never have a standard pattern. So it is a region of the genome in which you cannot trust if a peaks is a real peak or not. This is why i call it negative control.

It can be specific for antibody, Chromatin/TF, DNA specific antibody or Just a general regions in which all of them bind/interact randomly.

Does it makes sense?

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written by fusion.slope fusion.slope

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