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Question: Mirna Target Prediction In Dog Genome
1
gravatar for neal.platt
8.5 years ago by
neal.platt • 230
United States
neal.platt • 230 wrote:

I have a few hundred potential miRNAs as predicted by miRanalyzer for the dog genome. I am interested in finding proteins/potential binding sites. Software that I have found online either (A) only takes a single miRNA as input or (B) is designed with specific species (human, mouse, Drosophila) in mind. Does anyone have a reccomendation for miRNA target prediction that can handle an input file containing a thousand sequences?
mirna • 2.1k views
ADD COMMENT • link •
written 8.5 years ago by neal.platt • 230
1
gravatar for Rm
8.5 years ago by
Rm ♦ 8.0k
Danville, PA
Rm ♦ 8.0k wrote:

Check list of MicroRNA target prediction tools available: http://www.exiqon.com/microrna-target-prediction Some of them can be run locally (I haven't tested though)
ADD COMMENT • link written 8.5 years ago by Rm ♦ 8.0k

Thanks for the link. I have actually looked through those and am trying to figure out how to adapt them to my data set. Thanks.

ADD REPLY • link written 8.5 years ago by neal.platt • 230
1

Try http://bibiserv.techfak.uni-bielefeld.de/rnahybrid/submission.html : it takes multiple sequences at a time: you can upload your target sequences (from dog genome) and query mirna sequences

ADD REPLY • link written 8.5 years ago by Rm ♦ 8.0k
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