UCSC中基因组版本与其它数据库版本对应关系

因为各数据库对基因组有一套自己的命名法则,往往说的名称不一样,但基因组序列相同,如UCSC的hg19和NCBI的GRCh37就是同一基因组,现将UCSC中基因组版本与其它数据库版本的对应关系列出,方便大家查找。

SPECIES UCSC VERSION RELEASE DATE RELEASE NAME STATUS
MAMMALS
Human hg19 Feb. 2009 Genome Reference Consortium GRCh37 Available
  hg18 Mar. 2006 NCBI Build 36.1 Available
  hg17 May 2004 NCBI Build 35 Available
  hg16 Jul. 2003 NCBI Build 34 Available
  hg15 Apr. 2003 NCBI Build 33 Archived
  hg13 Nov. 2002 NCBI Build 31 Archived
  hg12 Jun. 2002 NCBI Build 30 Archived
  hg11 Apr. 2002 NCBI Build 29 Archived (data only)
  hg10 Dec. 2001 NCBI Build 28 Archived (data only)
  hg8 Aug. 2001 UCSC-assembled Archived (data only)
  hg7 Apr. 2001 UCSC-assembled Archived (data only)
  hg6 Dec. 2000 UCSC-assembled Archived (data only)
  hg5 Oct. 2000 UCSC-assembled Archived (data only)
  hg4 Sep. 2000 UCSC-assembled Archived (data only)
  hg3 Jul. 2000 UCSC-assembled Archived (data only)
  hg2 Jun. 2000 UCSC-assembled Archived (data only)
  hg1 May 2000 UCSC-assembled Archived (data only)
Alpaca vicPac1 Jul. 2008 Broad Institute VicPac1.0 Available
Armadillo dasNov3 Dec. 2011 Broad Institute DasNov3 Available
Bushbaby otoGar3 Mar. 2011 Broad Institute OtoGar3 Available
Baboon papHam1 Nov. 2008 Baylor College of Medicine HGSC Pham_1.0 Available
  papAnu2 Mar. 2012 Baylor College of Medicine Panu_2.0 Available
Cat felCat5 Sep. 2011 ICGSC Felis_catus-6.2 Available
  felCat4 Dec. 2008 NHGRI catChrV17e Available
  felCat3 Mar. 2006 Broad Institute Release 3 Available
Chimp panTro4 Feb. 2011 CGSC Build 2.1.4 Available
  panTro3 Oct. 2010 CGSC Build 2.1.3 Available
  panTro2 Mar. 2006 CGSC Build 2.1 Available
  panTro1 Nov. 2003 CGSC Build 1.1 Available
Cow bosTau7 Oct. 2011 Baylor College of Medicine HGSC Btau_4.6.1 Available
  bosTau6 Nov.
2009
University of Maryland v3.1 Available
  bosTau4 Oct. 2007 Baylor College of Medicine HGSC Btau_4.0 Available
  bosTau3 Aug. 2006 Baylor College of Medicine HGSC Btau_3.1 Available
  bosTau2 Mar. 2005 Baylor College of Medicine HGSC Btau_2.0 Available
  bosTau1 Sep. 2004 Baylor College of Medicine HGSC Btau_1.0 Archived
Dog canFam3 Sep. 2011 Broad Institute v3.1 Available
  canFam2 May 2005 Broad Institute v2.0 Available
  canFam1 Jul. 2004 Broad Institute v1.0 Available
Dolphin turTru2 Oct. 2011 Baylor College of Medicine Ttru_1.4 Available
Elephant loxAfr3 Jul. 2009 Broad Institute LoxAfr3 Available
Gibbon nomLeu2 Jun. 2011 Gibbon Genome Sequencing Consortium Nleu1.1 Available
  nomLeu1 Jan. 2010 Gibbon Genome Sequencing Consortium Nleu1.0 Available
Gorilla gorGor3 May 2011 Wellcome Trust Sanger Institute gorGor3.1 Available
Guinea pig cavPor3 Feb. 2008 Broad Institute cavPor3 Available
Hedgehog eriEur1 Jun. 2006 Broad Institute Draft_v1 Available
Horse equCab2 Sep. 2007 Broad Institute EquCab2 Available
  equCab1 Jan. 2007 Broad Institute EquCab1 Available
Kangaroo rat dipOrd1 Jul. 2008 Baylor/Broad Institute DipOrd1.0 Available
Manatee triMan1 Oct. 2011 Broad Institute TriManLat1.0 Available
Marmoset calJac3 Mar. 2009 WUSTL Callithrix_jacchus-v3.2 Available
  calJac1 Jun. 2007 WUSTL Callithrix_jacchus-v2.0.2 Available
Megabat pteVam1 Jul. 2008 Broad Institute Ptevap1.0 Available
Microbat myoLuc2 Jul. 2010 Broad Institute MyoLuc2.0 Available
Mouse mm10 Dec. 2011 Genome Reference Consortium GRCm38 Available
  mm9 Jul. 2007 NCBI Build 37 Available
  mm8 Feb. 2006 NCBI Build 36 Available
  mm7 Aug. 2005 NCBI Build 35 Available
  mm6 Mar. 2005 NCBI Build 34 Archived
  mm5 May 2004 NCBI Build 33 Archived
  mm4 Oct. 2003 NCBI Build 32 Archived
  mm3 Feb. 2003 NCBI Build 30 Archived
  mm2 Feb. 2002 MGSCv3 Archived
  mm1 Nov. 2001 MGSCv2 Archived (data only)
Mouse lemur micMur1 Jul. 2007 Broad Institute MicMur1.0 Available
Naked mole-rat hetGla2 Jan. 2012 Broad Institute HetGla_female_1.0 Available
  hetGla1 Jul. 2011 Beijing Genomics Institute HetGla_1.0 Available
Opossum monDom5 Oct. 2006 Broad Institute release MonDom5 Available
  monDom4 Jan. 2006 Broad Institute release MonDom4 Available
  monDom1 Oct. 2004 Broad Institute release MonDom1 Available
Orangutan ponAbe2 Jul. 2007 WUSTL Pongo_albelii-2.0.2 Available
Panda ailMel1 Dec. 2009 BGI-Shenzhen AilMel 1.0 Available
Pig susScr3 Aug. 2011 Swine Genome Sequencing Consortium Sscrofa10.2 Available
  susScr2 Nov. 2009 Swine Genome Sequencing Consortium Sscrofa9.2 Available
Pika ochPri2 Jul. 2008 Broad Institute release OchPri2 Available
Platypus ornAna1 Mar. 2007 WUSTL v5.0.1 Available
Rabbit oryCun2 Apr. 2009 Broad Institute release OryCun2 Available
Rat rn5 Oct. 2011 RGSC Rnor_5.0 Available
  rn4 Nov. 2004 Baylor College of Medicine HGSC v3.4 Available
  rn3 Jun. 2003 Baylor College of Medicine HGSC v3.1 Available
  rn2 Jan. 2003 Baylor College of Medicine HGSC v2.1 Archived
  rn1 Nov. 2002 Baylor College of Medicine HGSC v1.0 Archived
Rhesus rheMac3 Oct. 2010 Beijing Genomics Institute CR_1.0 Available
  rheMac2 Jan. 2006 Baylor College of Medicine HGSC v1.0 Mmul_051212 Available
  rheMac1 Jan. 2005 Baylor College of Medicine HGSC Mmul_0.1 Archived
Rock hyrax proCap1 Jul. 2008 Baylor College of Medicine HGSC Procap1.0 Available
Sheep oviAri1 Feb. 2010 ISGC Ovis aries 1.0 Available
Shrew sorAra1 Jun. 2006 Broad Institute SorAra1.0 Available
Sloth choHof1 Jul. 2008 Broad Institute ChoHof1.0 Available
Squirrel speTri2 Nov. 2011 Broad Institute SpeTri2.0 Available
Squirrel monkey saiBol1 Oct. 2011 Broad Institute SaiBol1.0 Available
Tarsier sorAra1 Aug. 2008 WUSTL/Broad Institute Tarsyr1.0 Available
Tasmanian devil sarHar1 Feb. 2011 Wellcome Trust Sanger Institute Devil_refv7.0 Available
Tenrec echTel1 Jul. 2005 Broad Institute EchTel1 Available
Tree shrew tupBel1 Dec. 2006 Broad Institute Tupbel1.0 Available
Wallaby macEug2 Sep. 2009 Tammar Wallaby Genome Sequencing Consortium Meug_1.1 Available
White rhinoceros cerSim1 May 2012 Broad Institute CerSimSim1.0 Available
         
VERTEBRATES        
Atlantic cod gadMor1 May 2010 Genofisk GadMor_May2010 Available
Budgerigar melUnd1 Sep. 2011 WUSTL v6.3 Available
Chicken galGal4 Nov.
2011
ICGC Gallus-gallus-4.0 Available
  galGal3 May 2006 WUSTL Gallus-gallus-2.1 Available
  galGal2 Feb. 2004 WUSTL Gallus-gallus-1.0 Available
Coelacanth latCha1 Aug. 2011 Broad Institute LatCha1 Available
Fugu fr3 Oct. 2011 JGI v5.0 Available
  fr2 Oct. 2004 JGI v4.0 Available
  fr1 Aug. 2002 JGI v3.0 Available
Lamprey petMar2 Sep. 2010 WUGSC 7.0 Available
petMar1 Mar. 2007 WUSTL v3.0 Available
Lizard anoCar2 May 2010 Broad Institute AnoCar2 Available
  anoCar1 Feb. 2007 Broad Institute AnoCar1 Available
Medaka oryLat2 Oct. 2005 NIG v1.0 Available
Medium ground finch geoFor1 Apr. 2012 BGI GeoFor_1.0 / NCBI 13302 Available
Nile tilapia oreNil2 Jan. 2011 Broad Institute Release OreNil1.1 Available
Painted turtle chrPic1 Dec. 2011 IPTGSC Chrysemys_picta_bellii-3.0.1 Available
Stickleback gasAcu1 Feb. 2006 Broad Institute Release 1.0 Available
Tetraodon tetNig2 Mar. 2007 Genoscope v7 Available
  tetNig1 Feb. 2004 Genoscope v7 Available
Turkey melGal1 Dec. 2009 Turkey Genome Consortium v2.01 Available
X. tropicalis xenTro3 Nov. 2009 JGI v.4.2 Available
  xenTro2 Aug. 2005 JGI v.4.1 Available
  xenTro1 Oct. 2004 JGI v.3.0 Available
Zebra finch taeGut1 Jul. 2008 WUSTL v3.2.4 Available
Zebrafish danRer7 Jul. 2010 Sanger Institute Zv9 Available
  danRer6 Dec. 2008 Sanger Institute Zv8 Available
  danRer5 Jul. 2007 Sanger Institute Zv7 Available
  danRer4 Mar. 2006 Sanger Institute Zv6 Available
  danRer3 May 2005 Sanger Institute Zv5 Available
  danRer2 Jun. 2004 Sanger Institute Zv4 Archived
  danRer1 Nov. 2003 Sanger Institute Zv3 Archived
         
DEUTEROSTOMES        
C. intestinalis ci2 Mar. 2005 JGI v2.0 Available
  ci1 Dec. 2002 JGI v1.0 Available
Lancelet braFlo1 Mar. 2006 JGI v1.0 Available
S. purpuratus strPur2 Sep. 2006 Baylor College of Medicine HGSC v. Spur 2.1 Available
  strPur1 Apr. 2005 Baylor College of Medicine HGSC v. Spur_0.5 Available
         
INSECTS        
A. mellifera apiMel2 Jan. 2005 Baylor College of Medicine HGSC v.Amel_2.0 Available
  apiMel1 Jul. 2004 Baylor College of Medicine HGSC v.Amel_1.2 Available
A. gambiae anoGam1 Feb. 2003 IAGP v.MOZ2 Available
D. ananassae droAna2 Aug. 2005 Agencourt Arachne release Available
  droAna1 Jul. 2004 TIGR Celera release Available
D. erecta droEre1 Aug. 2005 Agencourt Arachne release Available
D. grimshawi droGri1 Aug. 2005 Agencourt Arachne release Available
D. melanogaster dm3 Apr. 2006 BDGP Release 5 Available
D. melanogaster dm2 Apr. 2004 BDGP Release 4 Available
  dm1 Jan. 2003 BDGP Release 3 Available
D. mojavensis droMoj2 Aug. 2005 Agencourt Arachne release Available
  droMoj1 Aug. 2004 Agencourt Arachne release Available
D. persimilis droPer1 Oct. 2005 Broad Institute release Available
D. pseudoobscura dp3 Nov. 2004 Flybase Release 1.0 Available
  dp2 Aug. 2003 Baylor College of Medicine HGSC Freeze 1 Available
D. sechellia droSec1 Oct. 2005 Broad Institute Release 1.0 Available
D. simulans droSim1 Apr. 2005 WUSTL Release 1.0 Available
D. virilis droVir2 Aug. 2005 Agencourt Arachne release Available
  droVir1 Jul. 2004 Agencourt Arachne release Available
D. yakuba droYak2 Nov. 2005 WUSTL Release 2.0 Available
  droYak1 Apr. 2004 WUSTL Release 1.0 Available
         
NEMATODES        
C. brenneri caePb2 Feb. 2008 WUSTL 6.0.1 Available
  caePb1 Jan. 2007 WUSTL 4.0 Available
C. briggsae cb3 Jan. 2007 WUSTL Cb3 Available
  cb1 Jul. 2002 WormBase v. cb25.agp8 Available
C. elegans ce10 Oct. 2010 WormBase v. WS220 Available
  ce6 May 2008 WormBase v. WS190 Available
  ce4 Jan. 2007 WormBase v. WS170 Available
  ce2 Mar. 2004 WormBase v. WS120 Available
  ce1 May 2003 WormBase v. WS100 Archived
C. japonica caeJap1 Mar. 2008 WUSTL 3.0.2 Available
C. remanei caeRem3 May 2007 WUSTL 15.0.1 Available
  caeRem2 Mar. 2006 WUSTL 1.0 Available
P. pacificus priPac1 Feb. 2007 WUSTL 5.0 Available
         
OTHER        
Sea Hare aplCal1 Sep. 2008 Broad Release Aplcal2.0 Available
Yeast sacCer3 April 2011 SGD April 2011 sequence Available
sacCer2 June 2008 SGD June 2008 sequence Available
  sacCer1 Oct. 2003 SGD 1 Oct 2003 sequence Available

发表评论

电子邮件地址不会被公开。