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Low resolution with high background in ChIP

Explore causes of low resolution with high background in ChIP.

Low resolution with high background across large regions

Possible causes

Solution

DNA fragment size may be too large

DNA fragmentation should be optimized when using different cell types. Both sonication times and enzyme incubation times can vary.

  • We suggest a DNA fragment size of no larger than 1.5 kbp. If chromatin is being digested using enzymes, mononucleosomes (175 bp) can be obtained.