miRTarBase link sets


miRTarBase: a database curates experimentally validated microRNA-target interactions.
Hsu SD, Lin FM, Wu WY, Liang C, Huang WC, Chan WL, Tsai WT, Chen GZ, Lee CJ, Chiu CM, Chien CH, Wu MC, Huang CY, Tsou AP, Huang HD.
Nucleic Acids Res. 2011 Jan;39(Database issue):D163-9.
doi: 10.1093/nar/gkq1107

miRTarBase website: http://mirtarbase.mbc.nctu.edu.tw/
miRTarBase license: LICENSE


miRTarBase release 7.0

The database content was downloaded from here.
The link sets were created with the linksetCreator v.2.0. Don’t forget to first unzip all link set files that you want to use and put them in the same folder.

Link set Species Interactions microRNAs Target genes Supported gene identifiers
mirtarbase_hsa_7.0.xgmml.zip Homo sapiens (hsa) 502,652 2,595 15,038 NCBI Gene, Ensembl, HGNC
mirtarbase_mmu_7.0.xgmml.zip Mus musculus (mmu) 49,830 958 7,233 NCBI Gene, Ensembl
mirtarbase_rno_7.0.xgmml.zip Rattus norvegicus (rno) 632 179 344 NCBI Gene, Ensembl
mirtarbase_dre_7.0.xgmml.zip Danio rerio (dre) 152 45 107 NCBI Gene, Ensembl

miRTarBase release 6.1

The database content was downloaded from here.
The RegINs were created with the Generic Converter script version 1.1. Don’t forget to first unzip all RegIN files that you want to use and put them in the same folder.

RegIN Species Interactions microRNAs Target genes Supported gene identifiers
mirtarbase-hsa-6.1.zip Homo sapiens (hsa) 410,602 2,645 14,797 NCBI Gene, Ensembl, HGNC
mirtarbase-mmu-6.1.zip Mus musculus (mmu) 48,379 828 7,078 NCBI Gene, Ensembl
mirtarbase-rno-6.1.zip Rattus norvegicus (rno) 482 162 244 NCBI Gene, Ensembl
mirtarbase-dre-6.1.zip Danio rerio (dre) 142 40 97 NCBI Gene, Ensembl

miRTarBase release 4.5

Download all miRTarBase 4.5 RegINs from here.
The RegINs were created with the Generic Converter script version 1.0.

Species Interactions microRNAs Target genes microRNAs without MIMAT id* Supported gene identifiers Database download
Homo sapiens (hsa) 39,091 596 12,013 54 NCBI Gene, Ensembl, UniProt hsa_MTI.xls
Mus musculus (mmu) 9,374 218 4,403 6 NCBI Gene, Ensembl, UniProt mmu_MTI.xls
Caenorhabditis elegans (cel) 3,217 155 448 1 NCBI Gene, Ensembl, UniProt cel_MTI.xls
Rattus norvegicus (rno) 333 127 149 0 NCBI Gene, Ensembl, UniProt rno_MTI.xls
Danio rerio (dre) 113 31 80 0 NCBI Gene, Ensembl, UniProt dre_MTI.xls

*microRNA ids couldn’t be mapped to a current MIMAT accession number.


miRTarBase release 4.4

Download all miRTarBase 4.4 RegINs from here.
The RegINs were created with the Generic Converter script version 1.0.

Species Interactions microRNAs Target genes microRNAs without MIMAT id* Supported gene identifiers Database download
Homo sapiens (hsa) 20,942 359 9,529 33 NCBI Gene, Ensembl, UniProt hsa_MTI.xls
Mus musculus (mmu) 9,216 196 4,364 4 NCBI Gene, Ensembl, UniProt mmu_MTI.xls
Caenorhabditis elegans (cel) 3,213 154 446 1 NCBI Gene, Ensembl, UniProt cel_MTI.xls
Rattus norvegicus (rno) 285 108 131 0 NCBI Gene, Ensembl, UniProt rno_MTI.xls
Danio rerio (dre) 104 26 75 0 NCBI Gene, Ensembl, UniProt dre_MTI.xls

*microRNA ids couldn’t be mapped to a current MIMAT accession number.


miRTarBase release 4.3

Download all miRTarBase 4.3 RegINs from here.
The RegINs were created with the Generic Converter script version 1.0.

Species Interactions microRNAs Target genes microRNAs without MIMAT id* Supported gene identifiers Database download
Homo sapiens (hsa) 20,750 349 9,511 31 NCBI Gene, Ensembl, UniProt hsa_MTI.xls
Mus musculus (mmu) 9,163 187 4,351 4 NCBI Gene, Ensembl, UniProt mmu_MTI.xls
Caenorhabditis elegans (cel) 3,041 147 402 1 NCBI Gene, Ensembl, UniProt cel_MTI.xls
Rattus norvegicus (rno) 255 100 121 0 NCBI Gene, Ensembl, UniProt rno_MTI.xls
Danio rerio (dre) 63 22 50 0 NCBI Gene, Ensembl, UniProt dre_MTI.xls

*microRNA ids couldn’t be mapped to a current MIMAT accession number.