I would like to know if the software miRDeep2, for miRNAs prediction from Next-Generation Sequencing data, when checking for a correct Drosha/Dicer cut, takes into consideration the presence of reads mapping on pre-miRNAs containing putative "offset miRNAs (moRNAs)" (to see what moRNAs are please, see the paper by Bortoluzzi et al. in Blood. 2012 Mar 29;119) and if the hairpin sequence is therefore retained or discarded for further analysis.
I fear that the software does not have a check for these particular miRNAs forms and can arbitrarily exclude "real" precursors encoding both moRNAs and miRNAs.
Have you ever encountered this problem?
Hi,
I used a couple of time this tool, but never checked that. What I can tell you it is, that all data is stored, and then score, so there is no filtering out, at least with the first version.
I think you could direct contact the authors, because they will very pleased to reply you, and quickly. And maybe, improve the tool.
cheers
Thank you Lorena, I have already contacted the authors...I am waiting for their reply.
- Badges
- Science topic
- Similar topics
- Biological Science
- Biochemistry
- Biomolecules
- Nucleic Acids
- RNA
- Small RNA
- microRNA