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  • abrah
    Junior Member
    • Jun 2014
    • 2
    #1

    Chip seq transcription factor low DNA yield

    Hello everyone
    i am trying to do chip seq with a transcription factor and several methylation and acetylation marks using chromatin from cells. After chip seq and data analysis, the number of peaks or enrichment of the transcription factor is very very low compared to methylation peaks or acetylation peaks. Can someone help me with some suggestions how to increase the transcription factor binding. How much of an initial IP'd DNA would you suggest. I have a feeling the Chip is not pulling out enough transcription factor binding sites for my protein of interest.
    Thanks a lot in advance
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