Genomic Regions that variate randomly to Antibody Binding

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7.9 years ago

fusion.slope ▴ 250

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 • 1.0k views

ADD COMMENT • link updated 7.9 years ago by pld 5.1k • written 7.9 years ago by fusion.slope ▴ 250

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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?)

ADD REPLY • link 7.9 years ago by jotan ★ 1.3k

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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?

ADD REPLY • link 7.9 years ago by fusion.slope ▴ 250

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