Table 3: miRNA target prediction tools.

DatabaseDescriptionURLReference

miRSystemPredict the target genes and pathwayshttp://mirsystem.cgm.ntu.edu.tw/[25]
miRandaPredict targets by finding high complementarity regions in 3’UTRhttp://www.microrna.org[26]
TargetScanDetect target genes by perfect complementarity to the seed regionhttp://www.targetscan.org[27]
PicTarSeed match, binding energy, conservationhttp://pictar.mdc-berlin.de/[28]
DIANA-microTBased on affinity interaction between miRNA and mRNAhttp://diana.cslab.ece.ntua.gr/[29]
MireBased on miRNA; mRNA duplex stability propertieshttp://didattica-online.polito.it/eda/miREE/[30]
RNA22Detect targets by pattern recognition and folding energyhttp://cbcsrv.watson.ibm.com/rna22.html[31]
Tar BaseCurated database for experimentally
tested miRNA targets
http://diana.cslab.ece.ntua.gr/tarbase/[32]
miRNA MAPCollection of experimentally verified miRNA targetshttp://mirnamap.mbc.nctu.edu.tw/[33]
MiRSelExtraction of miRNA; gene interactions from the literaturehttp://services.bio.ifi.lmu.de/mirsel/[34]
miRecordsTargets identified by 11 target prediction programmeshttp://mirecords.biolead.org/[35]
MiRTarBaseTargets collected manually from the literaturehttp://mirtarbase.mbc.nctu.edu.tw/[36]
miRWalkTarget identification by complimentarity (perl language)http://www.umm.uni-heidelberg.de/apps/zmf/mirwalk/[37]
Star BaseUse CLIP-Seq and Degradome-Seq data for miRNA target identificationhttp://starbase.sysu.edu.cn/[38]
VHoTIt gives information of viral miRNA relation with hosthttp://acl.snu.ac.kr/vhot/[39]
OMITBased on ontology design, data integrationhttp://bioportal.bioontology.org/ontologies/OMIT[40]
MiRParaIt uses support vector machine based softwarehttp://159.226.126.177/mirpara/[41]