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  • Chipseq - Watson and Crick strand

    Hi,

    I am reading about CHIPseq from this paper and I encountered the following paragraph
    We can take advantage of classical methods and measuring standards
    in the signal-over-noise problem. At the global scale, we use the
    background rate to estimate the ratio of the ChIP signal intensity to the
    landscape intensity; in each called peak region, we take the fold change of
    the ChIP signal intensity to the control signal intensity as the local estimate
    of the signal-to-noise ratio.
    Can anybody please explain how background rate is used to estimate the said ratio. And what exactly is landscape intensity?

    Regards
    Last edited by New2Bioinfo; 12-08-2016, 05:54 AM. Reason: Earlier doubt resolved but new doubt in same topic.
    ----

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