Combinatorial miRNA target prediction tool

ComiR (Combinatorial miRNA targeting) predicts whether a given mRNA is targeted by a set of miRNAs. ComiR uses miRNA expression to improve and combine multiple miRNA targets for each of the four prediction algorithms: miRanda, PITA, TargetScan and mirSVR. The composite scores of the four algorithms are then combined using a support vector machine trained on Drosophila Ago1 IP data.

Last update: 10/20/2015

Supported species: H. sapiens, M. musculus, D. melanogaster , C. elegans.
Comments/suggestions: clc196 [at] pitt [dot] edu

Click to downoad ComiR script and help file.
Download specific species files here:
H.sapiens (380G; tar.gz:15G)
M.musculus (68G; tar.gz:9.3G)
D.melanogaster (3G; tar.gz:520M)
C.elegans (1.3G; tar.gz:275M)

If you find ComiR useful please cite:

Useful Links
miRNA info databases
validated miRNA - target databases
other target prediction tools
miRBase, Tissue specific expression, MiRscan, mir2disease TarBase, miRecords miRanda, PITA, TargetScan, RNAhybrid, DIANA MicroT, miRTar, TargetMiner, PicTar, GenMiR++, TaLasso


  Supported by the National Library of Midicine - NIH
  Fondazione RiMED

Go to the help page
Go to the Benos Laboratory web page
Go to the Department of Computational Biology main web page
Go to the University of Pittsburgh main web page