Variome Data Standards(V1.0 beta)
- 3. Data analysis standards
- 4. Nomenclature standards
4.3 Shorten name of the organisms
Triplet or foursome shorten names of the organisms were used in the variation identification as in the miRBase (ftp://mirbase.org/pub/mirbase/CURRENT/organisms.txt.gz), the details in following:| #organism | #name | #NCBI-taxid |
|---|
| hsa | Homo sapiens | 9606 |
| osa | Oryza sativa | 4530 |
| sbi | Sorghum bicolor | 4558 |
| cfa | Canis familiaris | 9615 |
| zma | Zea mays | 4577 |
| gga | Gallus gallus | 9031 |
| aqu | Amphimedon queenslandica | 400682 |
| nve | Nematostella vectensis | 45351 |
| hma | Hydra magnipapillata | 6085 |
| sko | Saccoglossus kowalevskii | 10224 |
| spu | Strongylocentrotus purpuratus | 7668 |
| cin | Ciona intestinalis | 7719 |
| csa | Ciona savignyi | 51511 |
| odi | Oikopleura dioica | 34765 |
| bfl | Branchiostoma floridae | 7739 |
| xla | Xenopus laevis | 8355 |
| xtr | Xenopus tropicalis | 8364 |
| mdo | Monodelphis domestica | 13616 |
| age | Ateles geoffroyi | 9509 |
| lla | Lagothrix lagotricha | 9519 |
| sla | Saguinus labiatus | 78454 |
| mml | Macaca mulatta | 9544 |
| mne | Macaca nemestrina | 9545 |
| pbi | Pygathrix bieti | 61621 |
| ggo | Gorilla gorilla | 9593 |
| ppa | Pan paniscus | 9597 |
| ppy | Pongo pygmaeus | 9600 |
| ptr | Pan troglodytes | 9598 |
| ssy | Symphalangus syndactylus | 9590 |
| lca | Lemur catta | 9447 |
| oan | Ornithorhynchus anatinus | 9258 |
| cgr | Cricetulus griseus | 10029 |
| mmu | Mus musculus | 10090 |
| rno | Rattus norvegicus | 10116 |
| bta | Bos taurus | 9913 |
| oar | Ovis aries | 9940 |
| ssc | Sus scrofa | 9823 |
| dre | Danio rerio | 7955 |
| fru | Fugu rubripes | 31033 |
| tni | Tetraodon nigroviridis | 99883 |
| aga | Anopheles gambiae | 7165 |
| ame | Apis mellifera | 7460 |
| bmo | Bombyx mori | 7091 |
| dan | Drosophila ananassae | 7217 |
| der | Drosophila erecta | 7220 |
| dgr | Drosophila grimshawi | 7222 |
| dme | Drosophila melanogaster | 7227 |
| dmo | Drosophila mojavensis | 7230 |
| dpe | Drosophila persimilis | 7234 |
| dps | Drosophila pseudoobscura | 7237 |
| dse | Drosophila sechellia | 7238 |
| dsi | Drosophila simulans | 7240 |
| dvi | Drosophila virilis | 7244 |
| dwi | Drosophila willistoni | 7260 |
| dya | Drosophila yakuba | 7245 |
| lmi | Locusta migratoria | 7004 |
| tca | Tribolium castaneum | 7070 |
| dpu | Daphnia pulex | 6669 |
| isc | Ixodes scapularis | 6945 |
| cbr | Caenorhabditis briggsae | 6238 |
| cel | Caenorhabditis elegans | 6239 |
| sja | Schistosoma japonicum | 6182 |
| sma | Schistosoma mansoni | 6183 |
| sme | Schmidtea mediterranea | 79327 |
| cte | Capitella teleta | 283909 |
| cla | Cerebratulus lacteus | 6221 |
| hru | Haliotis rufescens | 6454 |
| lgi | Lottia gigantea | 225164 |
| ddi | Dictyostelium discoideum | 44689 |
| cre | Chlamydomonas reinhardtii | 3055 |
| pta | Pinus taeda | 3352 |
| ppt | Physcomitrella patens | 3218 |
| smo | Selaginella moellendorffii | 88036 |
| ath | Arabidopsis thaliana | 3702 |
| bna | Brassica napus | 3708 |
| bol | Brassica oleracea | 3712 |
| bra | Brassica rapa | 3711 |
| cpa | Carica papaya | 3649 |
| gma | Glycine max | 3847 |
| lja | Lotus japonicus | 34305 |
| mtr | Medicago truncatula | 3880 |
| vun | Vigna unguiculata | 3917 |
| ghb | Gossypium herbaceum | 34274 |
| ghr | Gossypium hirsutum | 3635 |
| gra | Gossypium raimondii | 29730 |
| ptc | Populus trichocarpa | 3694 |
| sly | Solanum lycopersicum | 4081 |
| vvi | Vitis vinifera | 29760 |
| sof | Saccharum officinarum | 4547 |
| tae | Triticum aestivum | 4565 |
| bkv | BK polyomavirus | 10629 |
| ebv | Epstein Barr virus | 10376 |
| hcmv | Human cytomegalovirus | 10359 |
| hiv1 | Human immunodeficiency virus 1 | 11676 |
| hsv1 | Herpes Simplex Virus 1 | 10298 |
| jcv | JC polyomavirus | 10632 |
| kshv | Kaposi sarcoma-associated herpesvirus | 37296 |
| mcmv | Mouse cytomegalovirus | 10366 |
| mcv | Merkel cell polyomavirus | 493803 |
| mdv1 | Mareks disease virus type 1 | 10390 |
| mdv2 | Mareks disease virus type 2 | 36353 |
| mghv | Mouse gammaherpesvirus 68 | 33708 |
| rlcv | Rhesus lymphocryptovirus | 45455 |
| rrv | Rhesus monkey rhadinovirus | 703611 |
| sv40 | Simian virus 40 | 10633 |
| hsv2 | Herpes Simplex Virus 2 | 10310 |
| pvu | Phaseolus vulgaris | 3885 |
| mdm | Malus domestica | 3750 |
| crm | Caenorhabditis remanei | 31234 |
| ppc | Pristionchus pacificus | 54126 |
| hbv | Herpes B virus | 10325 |
| bdi | Brachypodium distachyon | 15368 |
| aqc | Aquilegia caerulea | 218851 |
| iltv | Infectious laryngotracheitis virus | 10386 |
| hvt | Herpesvirus of turkeys | 37108 |
| peu | Populus euphratica | 75702 |
| eca | Equus caballus | 9796 |
| ola | Oryzias latipes | 8090 |
| bhv1 | Bovine herpesvirus 1 | 10320 |
| csi | Citrus sinensis | 2711 |
| ccl | Citrus clementina | 85681 |
| crt | Citrus reticulata | 85571 |
| ctr | Citrus trifoliata | 37690 |
| bma | Brugia malayi | 6279 |
| api | Acyrthosiphon pisum | 7029 |
| rco | Ricinus communis | 3988 |
| aae | Aedes aegypti | 7159 |
| gar | Gossypium arboreum | 29729 |
| cqu | Culex quinquefasciatus | 7176 |
| tgu | Taeniopygia guttata | 59729 |
| aly | Arabidopsis lyrata | 59689 |
| esi | Ectocarpus siliculosus | 2880 |
| nvi | Nasonia vitripennis | 7425 |
| ahy | Arachis hypogaea | 3818 |
| gso | Glycine soja | 3848 |
| pab | Picea abies | 3329 |
| smr | Strigamia maritima | 126957 |
| ttu | Triticum turgidum | 4571 |
| ata | Aegilops tauschii | 37682 |
| hvu | Hordeum vulgare | 4513 |
| far | Festuca arundinacea | 4606 |
| ngi | Nasonia giraulti | 7426 |
| nlo | Nasonia longicornis | 7427 |
| bgy | Bruguiera gymnorhiza | 39984 |
| bcy | Bruguiera cylindrica | 106616 |
| cln | Cunninghamia lanceolata | 28977 |
| pma | Petromyzon marinus | 7757 |
| tcc | Theobroma cacao | 3641 |
| xbo | Xenoturbella bocki | 242395 |
| egr | Echinococcus granulosus | 6210 |
| emu | Echinococcus multilocularis | 6211 |
| hme | Heliconius melpomene | 34740 |
| gpy | Glottidia pyramidata | 34515 |
| tre | Terebratulina retusa | 7580 |
| rgl | Rehmannia glutinosa | 99300 |
| cme | Cucumis melo | 3656 |
| bpcv1 | Bandicoot papillomatosis carcinomatosis virus type 1 | 479058 |
| bpcv2 | Bandicoot papillomatosis carcinomatosis virus type 2 | 500654 |
| ssp | Saccharum sp. | 15819 |
| rmi | Rhipicephalus microplus | 6941 |
| asu | Ascaris suum | 6253 |
| aca | Anolis carolinensis | 28377 |
| amg | Acacia mangium | 224085 |
| aau | Acacia auriculiformis | 205027 |
| pti | Phaeodactylum tricornutum | 2850 |
| hvsa | Herpesvirus saimiri strain A11 | 570519 |
| meu | Macropus eugenii | 9315 |
| ssl | Salvia sclarea | 38869 |
| tur | Tetranychus urticae | 32264 |
| sha | Sarcophilus harrisii | 9305 |
| hco | Haemonchus contortus | 6289 |
| hhv6b | Human herpesvirus 6B | 32604 |
| dpr | Digitalis purpurea | 4164 |
| nta | Nicotiana tabacum | 4097 |
| stu | Solanum tuberosum | 4113 |
| egu | Elaeis guineensis | 51953 |
| mes | Manihot esculenta | 3983 |
| mse | Manduca sexta | 7130 |
| cca | Cynara cardunculus | 4265 |
| lus | Linum usitatissimum | 4006 |
| pgi | Panax ginseng | 4054 |
| hbr | Hevea brasiliensis | 3981 |
| mja | Marsupenaeus japonicus | 27405 |
| prv | Pseudorabies virus | 10345 |
| pde | Pinus densata | 190402 |
| pol | Paralichthys olivaceus | 8255 |
| han | Helianthus annuus | 4232 |
| hci | Helianthus ciliaris | 73280 |
| htu | Helianthus tuberosus | 4233 |
| hex | Helianthus exilis | 400408 |
| har | Helianthus argophyllus | 73275 |
| hpe | Helianthus petiolaris | 4234 |
| hpa | Helianthus paradoxus | 73304 |
| hhi | Hippoglossus hippoglossus | 8267 |
| blv | Bovine leukemia virus | 11901 |
| ccr | Cyprinus carpio | 7962 |
| dev | Duck enteritis virus | 104388 |
| ppe | Prunus persica | 3760 |
| aja | Artibeus jamaicensis | 9417 |
| ipu | Ictalurus punctatus | 7998 |
| cbn | Caenorhabditis brenneri | 135651 |
| sci | Sycon ciliatum | 27933 |
| lco | Leucosolenia complicata | 433461 |
| prd | Panagrellus redivivus | 6233 |
| pmi | Patiria miniata | 46514 |
| lva | Lytechinus variegatus | 7654 |
| ama | Avicennia marina | 82927 |
| bbe | Branchiostoma belcheri | 7741 |
| ssa | Salmo salar | 8030 |
| str | Strongyloides ratti | 34506 |
| pxy | Plutella xylostella | 51655 |
| atr | Amborella trichopoda | 13333 |
| pin | Phytophthora infestans | 4787 |
| psj | Phytophthora sojae | 67593 |
| pra | Phytophthora ramorum | 164328 |
| efu | Eptesicus fuscus | 29078 |
| gsa | Gyrodactylus salaris | 37629 |
| bhv5 | Bovine herpesvirus 5 | 35244 |
| bfv | Bovine foamy virus | 207343 |
| chi | Capra hircus | 9925 |
| ocu | Oryctolagus cuniculus | 9986 |
| oha | Ophiophagus hannah | 8665 |
| tch | Tupaia chinensis | 246437 |