Hello all,
I've got few questions about micro-RNA
Analyzing my RNA-seq, I've found some up- and down-regulated genes. Pathway analysis (MsigDB) included few nicely enriched micro-RNA targets. Now, it seems that databases predicting the gene targets of those are very plentiful - but many seem abandoned.
Two questions I have is
1) what is the best microRNA target prediction software, and have they been systematically compared? It seems like mirdb.org is the newest one?
2) what sort of experiments would you do to reasonably validate if the microRNA you've identified actually plays a role in regulation in your particular setting?
Thank you for any ideas.
I've got few questions about micro-RNA
Analyzing my RNA-seq, I've found some up- and down-regulated genes. Pathway analysis (MsigDB) included few nicely enriched micro-RNA targets. Now, it seems that databases predicting the gene targets of those are very plentiful - but many seem abandoned.
Two questions I have is
1) what is the best microRNA target prediction software, and have they been systematically compared? It seems like mirdb.org is the newest one?
2) what sort of experiments would you do to reasonably validate if the microRNA you've identified actually plays a role in regulation in your particular setting?
Thank you for any ideas.