Table 1 Supported databases
From: The Ruby UCSC API: accessing the UCSC genome database using Ruby
Clade/organism | Databases |
|---|---|
human | Hg19, Hg18 |
mammals | chimp (PanTro3), orangutan (PonAbe2), rhesus (RheMac2), marmoset (CalJac3), mouse (Mm9), rat (Rn4), guinea pig (CavPor3), rabbit (OryCun2), cat (FelCat4), panda (AilMel1), dog (CanFam2), horse (EquCab2), pig (SusScr2), sheep (OviAri1), cow (BosTau4), elephant (LoxAfr3), opossum (MonDom5), platypus (OrnAna1) |
vertebrates | chicken (GalGal3), zebra finch (TaeGut1), lizard (AnoCar2), X. tropicalis (XenTro2), zebrafish (DanRer7), tetraodon (TetNig2), fugu (Fr2), stickleback (GasAcu1), medaka (OryLat2), lamprey (PetMar1) |
deuterostomes | lancelet (BraFlo1), sea squirt (Ci2), sea urchin (StrPur2) |
insects | D.melanogaster (Dm3), D.simulans (DroSim1), D.sechellia (DroSec1), D.yakuba (DroYak2), D.erecta (DroEre1), D.ananassae (DroAna2), D.pseudoobscura (Dp3), D.persimilis (DroPer1), D.virilis (DroVir2), D.mojavensis (DroMoj2), D.grimshawi (DroGri1), Anopheles mosquito (AnoGam1), honey bee (ApiMel2) |
nematodes | C.elegans (Ce6), C.brenneri (CaePb3), C.briggsae (Cb3), C.remanei (CaeRem3), C.japonica (CaeJap1), P.pacificus (PriPac1) |
others | sea hare (AplCal1), yeast (SacCer2) |
common databases | Go, HgFixed, Proteome, UniProt, VisiGene |