1. miRNA_SVM

Website: https://demo1.interagon.com/miRNA/cgi-bin/MiRNASVM.cgi

Reference:

Helvik, S.A., Snove, O., Jr. and Saetrom, P. (2007) Reliable prediction of Drosha processing sites improves microRNA gene prediction. Bioinformatics, 23, 142-149.

 

 

2. RNAmicro

Website: http://www.bioinf.uni-leipzig.de/~jana/software/index.html#RNAmicroWeb

Reference:

Hertel, J. and Stadler, P.F. (2006) Hairpins in a Haystack: recognizing microRNA precursors in comparative genomics data. Bioinformatics, 22, e197-202.

 

 

3. BayesMiRNAfind

Website: https://bioinfo.wistar.upenn.edu/miRNA/miRNA/login.php

Reference:

Yousef, M., Nebozhyn, M., Shatkay, H., Kanterakis, S., Showe, L.C. and Showe, M.K. (2006) Combining multi-species genomic data for microRNA identification using a Naive Bayes classifier. Bioinformatics, 22, 1325-1334.

 

 

4. ProMiR II

Website: http://cbit.snu.ac.kr/~ProMiR2/

Reference:

Nam, J.W., Shin, K.R., Han, J., Lee, Y., Kim, V.N. and Zhang, B.T. (2005) Human microRNA prediction through a probabilistic co-learning model of sequence and structure. Nucleic Acids Res, 33, 3570-3581.

Nam, J.W., Kim, J., Kim, S.K. and Zhang, B.T. (2006) ProMiR II: a web server for the probabilistic prediction of clustered, nonclustered, conserved and nonconserved microRNAs. Nucleic Acids Res, 34, W455-458.

 

 

5. miR-abela

Website: http://www.mirz.unibas.ch/cgi/pred_miRNA_genes.cgi

Reference:

Sewer, A., Paul, N., Landgraf, P., Aravin, A., Pfeffer, S., Brownstein, M.J., Tuschl, T., van Nimwegen, E. and Zavolan, M. (2005) Identification of clustered microRNAs using an ab initio prediction method. BMC Bioinformatics, 6, 267.

 

 

6. Triplet-SVM-classifier

Website: http://bioinfo.au.tsinghua.edu.cn/mirnasvm/

Reference:

Xue, C., Li, F., He, T., Liu, G.P., Li, Y. and Zhang, X. (2005) Classification of real and pseudo microRNA precursors using local structure-sequence features and support vector machine. BMC Bioinformatics, 6, 310.