Hi,

Has anyone determined how signal-to-noise changes in MNase-Seq profiles with 100 vs 200 vs 400 million reads? Does it improve? Or does it stay the same regardless?

Thanks!
This [method paper][1] for human MNase-seq recommends >10x coverage.
In [this other paper][2] on yeast, they reach between 13x and 177x fold coverage and consider it sufficient.

So I would say that at least 10x coverage is enough for proper peak definition.


  [1]: https://www-ncbi-nlm-nih-gov.insb.bib.cnrs.fr/pmc/articles/PMC3541821/
  [2]: https://academic.oup.com/nar/article/42/8/4934/1076121/Fuzziness-and-noise-in-nucleosomal-architecture#55493469