comprehensiveness of sequence coverage in miRNA-, ChIP-, RNA-seq?

[Stefan-w]

My problem: How figure out if the number of reads in sequencing I have is high enough to 1. cover ‘all’ target miRNAs/binding sites/mRNAs and 2. have high enough coverage to allow for stable quantification of target sequences.
Any help? Thank you :-)

[mudshark]

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.

[Stefan-w]

Thanx a lot, this should work also for miRNA- and mRNA-seq.