HHMMiR is a novel approach for de novo miRNA hairpin prediction in the absence of evolutionary conservation. HHMMiR implements a Hierarchical Hidden Markov Model (HHMM) that utilizes region-based structural as well as sequence information of miRNA precursors.
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S. Kadri, V. Hinman, P.V. Benos,
“HHMMiR: Efficient de novo Prediction of MicroRNAs using Hierarchical Hidden Markov Models“,
BMC Bioinformatics (Proc APBC 2009) (2009) 10 (Suppl 1):S35.