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Old 12-07-2016, 05:02 AM   #1
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Location: India

Join Date: Dec 2016
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Default Chipseq - Watson and Crick strand


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?


Last edited by New2Bioinfo; 12-08-2016 at 04:54 AM. Reason: Earlier doubt resolved but new doubt in same topic.
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chip seq, peak calling

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