Table 1.
List of miRNA target databases with experimentally validated targets
| Database name | Number of entry | Version/year | Implementation back/front end | Reference |
|---|---|---|---|---|
| TarBase |
miRNA–gene interactions:65 814 Species :24 Paper curate: 10,000 |
TarBase (2006) Tarbase 5 (2008) Tarbase 6.0 (2012) TarBase (2014) |
Sql Server PHP, Apache |
http://diana.imis.athenainnovation.gr/DianaTools/index.php?r=tarbase/index |
| miRecords |
miRNA-gene interaction: 2705 miRNA: 664 gene:1907 from 9 animal Curated from low through put experiment:2028 |
miRecords (2008) last updated April 2013 |
MySQL, Fedora Core 6 Linux PHP project on Apache 2.0 |
http://mirecords.biolead.org/ |
| miRGator |
Mature miRNA: 1856 Validated target:4745 Predicted target :6 218 792 |
miRGator (2008) miRGator (2011) miRGator (2013) |
MySQL Java script J-Query |
|
| miRWalk | 858,750,070 interactions between 11,748 miRNAs and 308,700 genes |
miRwalk 1.0 (2010) miRWalks2.0 (2014) |
MySQL, JavaScript Perl and BioPerl Scripts, bw GRID (High Performance Cluster) |
http://www.umm.uni-heidelberg.de/apps/zmf/mirwalk/ |
| miRTarBase |
Species: 18 Target genes: 22,563 miRNAs: 3786 miRNA–target interactions: 366,181 Articles: 4966 |
miRTarBase 1.0 (2010) miRTarBase 4.0 (2014) miRTarBase 5.0(2015) miRTarBase 6.0(2016) |
MySQL PHP |
http://mirtarbase.mbc.nctu.edu.tw/index.php |
| miRSel |
Human (2112 pairs) Mouse (895 pairs) Rat (231pairs) Other organism: (452 pairs) |
miRSel (2010) |
JAVA (JDK 1.6, ZKoss framework) Tomcat v 6.0 |
http://services.bio.ifi.lmu.de/mirsel/ |
| starBase |
miRNA-circRNA: 9000 miRNA-pseudogene: 16 000 protein–RNA: 285 000 |
StarBase (2011) Starbase (2014) |
MySQL PHP on Apache |
http://starbase.sysu.edu.cn |
| PMTED |
miRNA:1897 Target: 5449 Species:12 Experiment:311 Assay:3492 |
PMTED (2013) |
MySql PHP HTML |
http://pmted.agrinome.org/ |
| ComiRNet |
5 million MTIs miRNA: 934 mRNA:30,835 biclusterhierarchies:15 |
ComiRNet(2015) |
PostgreSql Play2.2 framework runs on server Netty (netty.io) |
http://www.comirnet.di.uniba.it |
| MtiBase |
Gene: 15,546 miRNA: 4420 4 400 000 CDS - 470 000 5′UTR miRNA target sites SNP influence 290,000 CDS and 28,000 5′UTR miRNA target sites |
MtiBase(2015) |
MySql PHP |
http://mtibase.sysu.edu.cn |