Table 2 Genome versions and gene annotation databases used and available through the IsomiR Window
From: IsomiR_Window: a system for analyzing small-RNA-seq data in an integrative and user-friendly manner
Species name | Genome accession | Bioconductor DB |
|---|---|---|
Animal species | ||
Bos taurus | bosTau9 | org.Bt.eg.db |
Canis familiaris | CanFam3.1 | org.Cf.eg.db |
Capra hircus | ARS1 | Not available |
Danio rerio | GRCz11 | org.Dr.eg.db |
Drosophila melanogaster | BDGP6 | org.Dm.eg.db |
Equus caballus | EquCab2 | Not available |
Gallus gallus | galGal6a | org.Gg.eg.db |
Homo sapiens | GRCh38 | org.Hs.eg.db |
Mus musculus | GRCm38 | org.Mm.eg.db |
Ovis aries | Oar_v3.1 | Not available |
Pan troglodytes | Pan_tro_3.0 | org.Pt.eg.db |
Rattus norvegicus | Rnor_6.0 | org.Rn.eg.db |
Sus scrofa | Sscrofa11.1 | org.Ss.eg.db |
Plant species | ||
Arabidopsis thaliana | TAIR10 | org.At.tair.db |
Brachypodium distachyon | Brachypodium_distachyon_v3.0 | Not available |
Oryza sativa Japonica Group | IRGSP-1.0 | Not available |
Solanum lycopersicum | SL3.0 | Not available |
Sorghum bicolor | Sorghum_bicolor_NCBIv3 | Not available |
Vitis vinifera | 12X | Not available |
Zea mays | B73_RefGen_v4 | Not available |