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Old 02-01-2012, 07:20 AM   #1
Stefan-w
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Default comprehensiveness of sequence coverage in miRNA-, ChIP-, RNA-seq?

My problem: How figure out if the number of reads in sequencing I have is high enough to 1. cover Ďallí target miRNAs/binding sites/mRNAs and 2. have high enough coverage to allow for stable quantification of target sequences.
Any help? Thank you :-)
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Old 02-01-2012, 11:55 PM   #2
mudshark
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for chipseq:

P. V. Kharchenko, M. Y. Tolstorukov, and P. J. Park. Design and analysis of chIP experiments for DNA–binding proteins. Nature Biotechnology, 26:1351–1359, 2008.
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Old 02-02-2012, 12:07 AM   #3
Stefan-w
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Thanx a lot, this should work also for miRNA- and mRNA-seq.
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