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Track and Table Releases
| This page contains track and table release information for the following genome assemblies: 10 Latest Changes (all assemblies) Human Feb. 2009 (GRCh37/hg19) (hg19) Human Mar. 2006 (NCBI36/hg18) (hg18) Human May 2004 (NCBI35/hg17) (hg17) Human July 2003 (NCBI34/hg16) (hg16) Chimp Oct. 2010 (CGSC 2.1.3/panTro3) (panTro3) Chimp Mar. 2006 (CGSC 2.1/panTro2) (panTro2) Chimp Nov. 2003 (CGSC 1.1/panTro1) (panTro1) Gorilla May 2011 (gorGor3.1/gorGor3) (gorGor3) Orangutan July 2007 (WUGSC 2.0.2/ponAbe2) (ponAbe2) Gibbon Jan. 2010 (GGSC Nleu1.0/nomLeu1) (nomLeu1) Rhesus Jan. 2006 (MGSC Merged 1.0/rheMac2) (rheMac2) Marmoset March 2009 (WUGSC 3.2/calJac3) (calJac3) Marmoset June 2007 (WUGSC 2.0.2/calJac1) (calJac1) Mouse July 2007 (NCBI37/mm9) (mm9) Mouse Feb. 2006 (NCBI36/mm8) (mm8) Mouse Aug. 2005 (NCBI35/mm7) (mm7) Rat Nov. 2004 (Baylor 3.4/rn4) (rn4) Rat June 2003 (Baylor 3.1/rn3) (rn3) Guinea pig Feb. 2008 (Broad/cavPor3) (cavPor3) Rabbit Apr. 2009 (Broad/oryCun2) (oryCun2) Cat Dec. 2008 (NHGRI/GTB V17e/felCat4) (felCat4) Cat Mar. 2006 (Broad/felCat3) (felCat3) Panda Dec. 2009 (BGI-Shenzhen 1.0/ailMel1) (ailMel1) Dog May 2005 (Broad/canFam2) (canFam2) Dog July 2004 (Broad/canFam1) (canFam1) Horse Sep. 2007 (Broad/equCab2) (equCab2) Microbat Jul. 2010 (Broad Institute Myoluc2.0/myoLuc2) (myoLuc2) Horse Jan. 2007 (Broad/equCab1) (equCab1) Pig Nov. 2009 (SGSC Sscrofa9.2/susScr2) (susScr2) Cow Nov. 2009 (Bos_taurus_UMD_3.1/bosTau6) (bosTau6) Sheep Feb. 2010 (ISGC Ovis_aries_1.0/oviAri1) (oviAri1) Cow Oct. 2007 (Baylor 4.0/bosTau4) (bosTau4) Cow Aug. 2006 (Baylor 3.1/bosTau3) (bosTau3) Cow Mar. 2005 (Baylor 2.0/bosTau2) (bosTau2) Elephant Jul. 2009 (Broad/loxAfr3) (loxAfr3) Opossum Oct. 2006 (Broad/monDom5) (monDom5) Opossum Jan. 2006 (Broad/monDom4) (monDom4) Opossum Oct. 2004 (Broad prelim/monDom1) (monDom1) Platypus Mar. 2007 (WUGSC 5.0.1/ornAna1) (ornAna1) Chicken May 2006 (WUGSC 2.1/galGal3) (galGal3) Turkey Dec. 2009 (TGC Turkey_2.01/melGal1) (melGal1) Chicken Feb. 2004 (WUGSC 1.0/galGal2) (galGal2) Zebra finch Jul. 2008 (WUGSC 3.2.4/taeGut1) (taeGut1) Lizard May 2010 (Broad AnoCar2.0/anoCar2) (anoCar2) Lizard Feb. 2007 (Broad/anoCar1) (anoCar1) X. tropicalis Nov. 2009 (JGI 4.2/xenTro3) (xenTro3) X. tropicalis Aug. 2005 (JGI 4.1/xenTro2) (xenTro2) X. tropicalis Oct. 2004 (JGI 3.0/xenTro1) (xenTro1) Zebrafish Jul. 2010 (Zv9/danRer7) (danRer7) Zebrafish Dec. 2008 (Zv8/danRer6) (danRer6) Zebrafish July 2007 (Zv7/danRer5) (danRer5) Zebrafish Mar. 2006 (Zv6/danRer4) (danRer4) Zebrafish May 2005 (Zv5/danRer3) (danRer3) Tetraodon Mar. 2007 (Genoscope 8.0/tetNig2) (tetNig2) Tetraodon Feb. 2004 (Genoscope 7/tetNig1) (tetNig1) Fugu Oct. 2004 (JGI 4.0/fr2) (fr2) Fugu Aug. 2002 (JGI 3.0/fr1) (fr1) Stickleback Feb. 2006 (Broad/gasAcu1) (gasAcu1) Medaka Oct. 2005 (NIG/UT MEDAKA1/oryLat2) (oryLat2) Lamprey Mar. 2007 (WUGSC 3.0/petMar1) (petMar1) Lancelet Mar. 2006 (JGI 1.0/braFlo1) (braFlo1) C. intestinalis Mar. 2005 (JGI 2.1/ci2) (ci2) C. intestinalis Dec. 2002 (JGI 1.0/ci1) (ci1) S. purpuratus Sep. 2006 (Baylor 2.1/strPur2) (strPur2) S. purpuratus Apr. 2005 (Baylor 1.1/strPur1) (strPur1) Sea hare Sept. 2008 (Broad 2.0/aplCal1) (aplCal1) C. elegans May 2008 (WS190/ce6) (ce6) C. elegans Jan. 2007 (WS170/ce4) (ce4) C. elegans Mar. 2004 (WS120/ce2) (ce2) C. brenneri Feb. 2008 (WUGSC 6.0.1/caePb2) (caePb2) C. brenneri Jan. 2007 (WUGSC 4.0/caePb1) (caePb1) C. briggsae Jan. 2007 (WUGSC 1.0/cb3) (cb3) C. briggsae July 2002 (WormBase cb25.agp8/cb1) (cb1) C. remanei May 2007 (WUGSC 15.0.1/caeRem3) (caeRem3) C. remanei Mar. 2006 (WUGSC 1.0/caeRem2) (caeRem2) C. japonica Mar. 2008 (WUGSC 3.0.2/caeJap1) (caeJap1) P. pacificus Feb. 2007 (WUGSC 5.0/priPac1) (priPac1) D. melanogaster Apr. 2006 (BDGP R5/dm3) (dm3) D. melanogaster Apr. 2004 (BDGP R4/dm2) (dm2) D. melanogaster Jan. 2003 (BDGP R3/dm1) (dm1) D. simulans Apr. 2005 (WUGSC mosaic 1.0/droSim1) (droSim1) D. sechellia Oct. 2005 (Broad/droSec1) (droSec1) D. yakuba Nov. 2005 (WUGSC 7.1/droYak2) (droYak2) D. yakuba Apr. 2004 (WUGSC 1.0/droYak1) (droYak1) D. erecta Aug. 2005 (Agencourt prelim/droEre1) (droEre1) D. ananassae Aug. 2005 (Agencourt prelim/droAna2) (droAna2) D. ananassae July 2004 (TIGR/droAna1) (droAna1) D. pseudoobscura Nov. 2004 (FlyBase 1.03/dp3) (dp3) D. pseudoobscura Aug. 2003 (Baylor freeze1/dp2) (dp2) D. persimilis Oct. 2005 (Broad/droPer1) (droPer1) D. virilis Aug. 2005 (Agencourt prelim/droVir2) (droVir2) D. virilis July 2004 (Agencourt prelim/droVir1) (droVir1) D. mojavensis Aug. 2005 (Agencourt prelim/droMoj2) (droMoj2) D. mojavensis Aug. 2004 (Agencourt prelim/droMoj1) (droMoj1) D. grimshawi Aug. 2005 (Agencourt prelim/droGri1) (droGri1) A. gambiae Feb. 2003 (IAGEC MOZ2/anoGam1) (anoGam1) A. mellifera Jan. 2005 (Baylor 2.0/apiMel2) (apiMel2) A. mellifera July 2004 (Baylor 1.2/apiMel1) (apiMel1) S. cerevisiae Apr. 2011 (SacCer_Apr2011/sacCer3) (sacCer3) S. cerevisiae June 2008 (SGD/sacCer2) (sacCer2) S. cerevisiae Oct. 2003 (SGD/sacCer1) (sacCer1) For more information about the tracks and tables listed on this page, refer to the User's Guide. Last updated 05 Dec 2011. Inquiries and feedback welcome. |
10 Latest Changes (all assemblies)
Track/Table Name | Assembly | Release Date
CpG Methylation by Methyl 450K Bead Arrays from ENCODE/HAIB | hg19 | 01 Dec 2011
CpG Islands | ornAna1 | 29 Nov 2011
International Standards for Cytogenomic Arrays Consortium (ISCA) | hg18 hg19 | 29 Nov 2011
Histone Modifications by ChIP-seq by ChIP-seq from ENCODE/Caltech | mm9 | 28 Nov 2011
Gibbon Chain/Net | hg19 | 28 Nov 2011
Gorilla Chain/Net | rheMac2 | 28 Nov 2011
Gorilla Chain/Net | ponAbe2 | 28 Nov 2011
Gorilla Chain/Net | panTro3 | 28 Nov 2011
Gorilla Chain/Net | hg19 | 28 Nov 2011
Gorilla Chain/Net | calJac3 | 28 Nov 2011
Human Feb. 2009 (GRCh37/hg19) (hg19, GRCh37 Genome Reference Consortium Human Reference 37 (GCA_000001405.1))
Track/Table Name | Release Date
CpG Methylation by Methyl 450K Bead Arrays from ENCODE/HAIB | 01 Dec 2011
International Standards for Cytogenomic Arrays Consortium (ISCA) | 29 Nov 2011
Gibbon Chain/Net | 28 Nov 2011
Gorilla Chain/Net | 28 Nov 2011
lincRNA RNA-Seq reads | 28 Nov 2011
GeneReviews | 21 Nov 2011
Agilent Cancer 4x180k Arrays | 18 Nov 2011
Histone Modifications by ChIP-seq from ENCODE/University of Washington | 17 Nov 2011
X. tropicalis Chain/Net | 15 Nov 2011
Turkey Chain/Net | 07 Nov 2011
Cow Chain/Net | 07 Nov 2011
Ensembl Genes v64 | 07 Nov 2011
Transcription Factor Binding Sites by ChIP-seq from ENCODE/Stanford/Yale/USC/Harvard | 29 Oct 2011
ENCODE Mapability (hg19 release 3) | 28 Oct 2011
COSMIC: Catalogue Of Somatic Mutations In Cancer | 28 Oct 2011
Segmental Dups - Duplications of >1000 Bases of Non-RepeatMasked Sequence | 21 Oct 2011
DNaseI Hypersensitivity by Digital DNaseI from ENCODE/University of Washington (Release 3) | 19 Oct 2011
RNA Subcellular Localization by Paired End diTag Sequencing from GIS/ENCODE | 17 Oct 2011
Long RNA-seq from ENCODE/Cold Spring Harbor Lab | 17 Oct 2011
Hi Seq Depth | 14 Oct 2011
Affymetrix Exon Array from ENCODE/Duke (Release 2) | 13 Oct 2011
Chromatin Interactions by 5C from ENCODE/University of Washington | 10 Oct 2011
Histone Modifications by ChIP-seq from ENCODE/SYDH (Release 2) | 07 Oct 2011
RNA Binding Protein Associated RNA by RIP-chip GeneST from ENCODE/SUNY Albany (Release 2 - fixed p & q values and scores) | 04 Oct 2011
DNA Methylation by Reduced Representation Bisulfite Seq from ENCODE/HudsonAlpha (Release 2) | 30 Sep 2011
Ensembl gene update, version 63 | 30 Sep 2011
Proteogenomics from ENCODE/Univ. North Carolina/Boise State Univ. | 29 Sep 2011
NHGRI Catalog of Published Genome-Wide Association Studies, GWAS (data update) | 28 Sep 2011
IKMC Genes Mapped (update) | 09 Sep 2011
RNA-seq from ENCODE/Stanford/Yale/USC/Harvard | 08 Sep 2011
DECIPHER: Chromosomal Imbalance and Phenotype in Humans (update) | 31 Aug 2011
RIP-seq from ENCODE/SUNY Albany | 29 Aug 2011
GRCh37 patch5 alternate sequences, haplotypes and reference sequence patches | 26 Aug 2011
Genotype (CNV and SNP) by Illumina 1MDuo and CBS from ENCODE/HudsonAlpha | 16 Aug 2011
RNA Binding Protein Associated RNA by SwitchGear from ENCODE/SUNY Albany | 15 Aug 2011
NumtS mitochondrial sequence | 05 Aug 2011
Nucleosome Position by MNase-seq from ENCODE/Stanford/BYU | 29 Jul 2011
Transcription Factor Binding Sites by ChIP-seq from ENCODE/HAIB | 18 Jul 2011
Lizard Chain/Net | 14 Jul 2011
Gene Annotations from ENCODE/GENCODE Version 7 | 11 Jul 2011
Genomic Evolutionary Rate Profiling (GERP) scores for mammalian alignments | 07 Jul 2011
Chromatin State Segmentation by HMM from ENCODE/Broad | 24 Jun 2011
evoFold (update; predicted RNA structure images added to details view) | 17 Jun 2011
OMIM AV SNPs, OMIM Genes, and OMIM Loci | 15 Jun 2011
Affymetrix Exon Array from ENCODE/Duke | 14 Jun 2011
NHGRI Catalog of Published Genome-Wide Association Studies, GWAS (data update) | 13 Jun 2011
DNaseI/FAIRE/ChIP Synthesis from ENCODE/OpenChrom(Duke/UNC/UTA) | 10 Jun 2011
Transcription Factor Binding Sites by Epitope-Tag ChIP-seq from ENCODE/University of Chicago | 03 Jun 2011
Integrated Regulation from ENCODE Tracks (Transcription, Layered H3K4Me1, Layered H3K4Me3, Layered H3K27Ac, DNase Clusters, Txn Factor ChIP) | 19 May 2011
Histone Modifications by ChIP-seq from ENCODE/Stanford/Yale/Davis/Harvard | 19 May 2011
ORChID Predicted DNA Cleavage Sites from ENCODE/Boston Univ | 18 May 2011
Ensembl gene update, version 62 | 12 May 2011
DNaseI Hypersensitivity by Digital DNaseI from ENCODE/University of Washington | 04 May 2011
AceView Genes | 04 May 2011
RNA Binding Protein Associated RNA by RIP-chip GeneST from ENCODE/SUNY Albany | 28 Apr 2011
Open Chromatin by DNaseI HS from ENCODE/Duke University | 19 Apr 2011
Sheep Chain/Net | 19 Apr 2011
Common SNPs(132), Flagged SNPs(132), Mult. SNPs(132), All SNPs(132) | 11 Apr 2011
hg19 Version 2: featuring probe/probeset stratification and multiple views hg19 Version 1 (BED files dated Nov 4 2009) | 08 Apr 2011
DNaseI Digital Genomic Footprinting from ENCODE/University of Washington (Release 2) | 07 Apr 2011
NHGRI Catalog of Published Genome-Wide Association Studies, GWAS (data update) | 01 Apr 2011
Affymetrix Exon Array from ENCODE/University of Washington | 01 Apr 2011
RNA CAGE Subcellular Localization from ENCODE/RIKEN | 23 Mar 2011
Open Chromatin by FAIRE-seq from ENCODE/UNC | 21 Mar 2011
IKMC Genes Mapped (update) | 21 Mar 2011
CTCF Binding Sites by ChIP-seq from ENCODE/University of Washington | 17 Mar 2011
Open Chromatin TFBS by ChIP-seq from ENCODE/Open Chrom(UT Austin) | 17 Mar 2011
NCBI Incident database | 10 Mar 2011
Ensembl gene update, version 61 | 10 Mar 2011
DGV - data update (v10) | 04 Mar 2011
DECIPHER: Chromosomal Imbalance and Phenotype in Humans | 22 Feb 2011
RNA Binding Protein Associated RNA by Tiling Array from ENCODE/SUNY Albany | 14 Feb 2011
Histone Modifications by ChIP-seq from ENCODE/University of Washington | 11 Feb 2011
Histone Modifications by ChIP-seq from ENCODE/Broad Institute | 10 Feb 2011
ENCODE Caltech (Wold Lab) RNA-seq | 08 Feb 2011
Agilent CGH | 04 Feb 2011
Zebrafish Chain/Net | 03 Feb 2011
HapMap SNPs (lift from hg18 to hg19) | 01 Feb 2011
UMass Med School Brain Histone H3K4me3 ChIP-seq | 26 Jan 2011
Simple Nucleotide Polymorphisms (dbSNP build 131): corrected missing functional annotation value | 25 Jan 2011
Poly(A) Sites, hg18 liftover | 21 Jan 2011
UCSF Brain DNA Methylation (lift from hg18) | 21 Jan 2011
Genetic Association Studies of Complex Diseases and Disorders (lift from hg18) | 21 Jan 2011
NHGRI Catalog of Published Genome-Wide Association Studies, GWAS (data update) | 21 Jan 2011
H-Invitational Genes mRNA Alignments (lifted from hg18) | 19 Jan 2011
Fosmid End Pairs (lift from hg18) | 19 Jan 2011
Alignments of Illumina WG-6 3.0 Probe set (lifted from hg18) | 18 Jan 2011
MGI Mouse QTL (lifted from hg18) | 18 Jan 2011
RGD Rat QTL (lift from hg18) | 18 Jan 2011
SwitchGear Genomics Transcription Start Sites (lifted from hg17) | 14 Jan 2011
Cons Indels MmCf (lifted from hg18) | 14 Jan 2011
SNP Arrays (lift from hg18) | 14 Jan 2011
Alternative Splicing Graph from Swiss Institute of Bioinformatics (lift from hg18) | 14 Jan 2011
Eur. Inst. Oncology/J. C. Venter Inst. Nuclease Accessible Sites (lift to hg19) | 13 Jan 2011
ENCODE GIS DNA PET (update: added fastq files) | 12 Jan 2011
Neandertal Mitochondrial Sequence (Vi33.16, 2008)(lifted from hg18) | 12 Jan 2011
Neandertal Sequence Reads | 12 Jan 2011
Candidate Regions for Gene Flow from Neandertal to Non-African Modern Humans (lifted from hg18) | 12 Jan 2011
SNPS Used for Selective Sweep Scan (S) (lifted from hg18) | 12 Jan 2011
Selective Sweep Scan (S): 5% Smallest S scores (lifted from hg18) | 12 Jan 2011
Selective Sweep Scan (S) on Neandertal vs. Human Polymorphisms (Z-Score +- Variance) (lifted from hg18) | 12 Jan 2011
Neandertal Alleles in Human/Chimp Coding Non-synonymous Differences in Human Lineage (lifted from hg18) | 12 Jan 2011
NKI Nuclear Lamina Associated Domains (LaminB1 DamID) (lift from hg18) | 11 Jan 2011
GRCh37 patch2 alternate sequences, haplotypes and reference sequence patches | 11 Jan 2011
ORegAnno (lift to hg19) | 06 Jan 2011
FISH Clones (lifted from hg18) | 05 Jan 2011
Recombination Rate | 05 Jan 2011
RGD Human QTL (lifted from hg18) | 27 Dec 2010
TS miRNA sites | 17 Dec 2010
ENCODE UW DNaseI HS | 16 Dec 2010
ENCODE HAIB Methyl RRBS | 15 Dec 2010
Add links to LS-SNP for hg19 | 15 Dec 2010
Human RNA Editing (from the DAtabase of RNa EDiting) | 15 Dec 2010
ENCODE UW DNaseI DGF | 14 Dec 2010
EvoFold Predictions of RNA Secondary Structure | 14 Dec 2010
Vista Enhancers | 13 Dec 2010
Alignments of Affymetrix Consensus/Exemplars from GNF1H | 13 Dec 2010
Affymetrix Consensus/Exemplars from HG-U95 | 08 Dec 2010
Affymetrix Consensus/Exemplars from HG-U133 Plus 2.0 | 08 Dec 2010
ENCODE Affymetrix/CSHL Subcellular RNA Localization by Tiling Array | 03 Dec 2010
Microsatellites | 22 Nov 2010
Contigs new to GRCh37/(hg19), not carried forward from NCBI build 36(hg18) plus the GRC Map Contigs track | 22 Nov 2010
ENCODE CSHL Sm RNA-seq | 17 Nov 2010
ENCODE Genome Institute of Singapore RNA-seq | 17 Nov 2010
Corrected coordinates of NCBI's coding functional annotations used in item details pages in hg18's and hg19's SNPs (130) and in hg19's SNPs (131). Also added a few missing coding functional annotations to hg19's SNPs (131). | 15 Nov 2010
Sestan Brain Atlas | 15 Nov 2010
NHGRI Catalog of Published Genome-Wide Association Studies, GWAS (data update) | 09 Nov 2010
Gene Bounds | 09 Nov 2010
Affy U133 | 08 Nov 2010
HGDP Alleles | 05 Nov 2010
Vega Annotations, version 39 | 28 Oct 2010
Genscan | 26 Oct 2010
NHGRI Catalog of Published Genome-Wide Association Studies (data update) | 12 Oct 2010
sno/miRNA track | 28 Sep 2010
IKMC Genes Mapped | 23 Sep 2010
ENCODE Gencode Gene Annotations (V4) | 15 Sep 2010
DGV - data update (v9) | 09 Sep 2010
ENCODE Genome Institute of Singapore DNA Paired-End Ditags | 08 Sep 2010
Ensembl gene update, version 59 | 23 Aug 2010
BlastTab tables rebuild | 23 Aug 2010
Cat Chain/Net | 17 Aug 2010
Ensembl gene update, version 58 | 21 Jun 2010
Simple Nucleotide Polymorphisms (dbSNP build 131) | 04 Jun 2010
NHGRI Catalog of Published Genome-Wide Association Studies (data update) | 04 Jun 2010
ENCODE Mapability or Uniqueness of Reference Genome | 03 Jun 2010
Marmoset Chain/Net | 03 Jun 2010
Burge RNA-seq | 27 May 2010
tRNA Genes | 18 May 2010
Pig Chain/Net | 12 May 2010
Rabbit Chain/Net | 26 Apr 2010
Panda Chain/Net | 16 Apr 2010
NHGRI Catalog of Published Genome-Wide Association Studies (data update) | 06 Apr 2010
Elephant Chain and Net | 24 Mar 2010
Sea Hare Chain/Net and liftOver file | 15 Mar 2010
Tetraodon Chain/Net and liftOver file | 12 Mar 2010
NHGRI Catalog of Published Genome-Wide Association Studies (data update) | 03 Mar 2010
UCSC In-Silico PCR (update: PCR can be run against UCSC Genes for hg19) | 01 Mar 2010
Segmental Dups | 22 Feb 2010
GWAS Catalog | 18 Feb 2010
Exoniphy | 13 Jan 2010
Zebrafish Chain and Net | 12 Jan 2010
multiz46way spp tree update | 11 Jan 2010
TransMap Alignments | 17 Dec 2009
Added link to The GeneNetwork from the UCSC Genes details page. | 03 Dec 2009
Alt Events | 01 Dec 2009
Vertebrate Multiz Alignment & Conservation (46 Species) | 01 Dec 2009
OMIM Genes | 01 Dec 2009
Initial release of UCSC Genes | 01 Dec 2009
Allen Brain Atlas Probes | 18 Nov 2009
GNF Atlas 2 | 10 Nov 2009
Vertebrate genomes, Chain and Net alignment tracks (secondary release) | 09 Oct 2009
Simple Nucleotide Polymorphisms (dbSNP build 130): dbSNP's provisional mapping of SNP coordinates from hg18 (NCBI human build 36) to hg19 (GRCh37). | 30 Sep 2009
Vertebrate genomes, Chain and Net alignment tracks (primary release) | 29 Sep 2009
Chains and Nets for non-primate mammal species vs Human | 16 Sep 2009
Initial CCDS release on GRCh37 | 14 Sep 2009
Ensembl gene predictions v55 | 11 Aug 2009
Primate chains and nets from/to human hg19 | 21 Jul 2009
N-SCAN gene predictions from Brent Lab at WUSTL | 17 Jul 2009
Chromosome Bands | 12 Jun 2009
STS Markers on Genetic and Radiation Hybrid Maps | 22 May 2009
Physical Map Contigs | 21 May 2009
BAC End Pairs | 21 May 2009
UCSC to Ensembl chrom name conversion and haplotype lift | 19 May 2009
Chimp Chain/Net/LiftOver (panTro2) | 06 May 2009
Initial hg19 release (using GRCh37 Genome Reference Consortium Human Reference 37 (GCA_000001405.1)): Assembly, Gap, GC Percent, RefSeq Genes, Non-Human RefSeq, MGC Genes, ORFeome Clones, Human mRNAs, Spliced ESTs, Human ESTs, Non-Human mRNAs, Non-Human ESTs, CpG Islands, RepeatMasker, Interrupted Rpts, Simple Repeats, Self Chain. Downloads: bigZips, chromosomes, database. | 27 Apr 2009
ORChID Predicted DNA Cleavage Sites from ENCODE/Boston Univ (Tullius lab) | 27 Apr
Human Mar. 2006 (NCBI36/hg18) (hg18, NCBI Build 36.1)
Track/Table Name | Release Date
International Standards for Cytogenomic Arrays Consortium (ISCA) | 29 Nov 2011
GeneReviews | 21 Nov 2011
Hi Seq Depth | 14 Oct 2011
ENCODE Univ. Washington DNaseI Hypersensitivity by Digital DNaseI - Validation data (Release 5) | 11 Oct 2011
NHGRI Catalog of Published Genome-Wide Association Studies, GWAS (data update) | 28 Sep 2011
EvoFold V2 | 21 Sep 2011
ENCODE Chromatin State Segmentation by HMM from Broad Institute, MIT and MGH | 24 Jun 2011
evoFold (update; predicted RNA structure images added to details view) | 17 Jun 2011
OMIM AV SNPs, OMIM Genes, and OMIM Loci | 15 Jun 2011
B-Cell Transcriptome (RNA-Seq) | 14 Jun 2011
NHGRI Catalog of Published Genome-Wide Association Studies, GWAS (data update) | 13 Jun 2011
ENCODE Transcription Factor Binding Sites by ChIP-seq from Yale/UC-Davis/Harvard | 03 Jun 2011
ENCODE Common Cell CNV (Release 2): colors in Regions view subtracks updated to new standards | 08 Apr 2011
NHGRI Catalog of Published Genome-Wide Association Studies, GWAS (data update) | 01 Apr 2011
DGV - data update (v10) | 04 Mar 2011
ENCODE UW DNaseI HS (Release 4): Jurkat (G1 Phase) and HIPEpic replicates have been revoked | 24 Feb 2011
NHGRI Catalog of Published Genome-Wide Association Studies, GWAS (data update) | 21 Jan 2011
Denisova Sequence Reads and Alignments of Sequence Reads from 7 Modern Humans | 23 Dec 2010
Reprogrammed Differentially Methylated Regions (R-DMR) | 01 Dec 2010
Contigs dropped or changed from NCBI build 36(hg18) to GRCh37(hg19) | 19 Nov 2010
NumtSeq | 17 Nov 2010
Corrected coordinates of NCBI's coding functional annotations used in item details pages in hg18's and hg19's SNPs (130) and in hg19's SNPs (131). Also added a few missing coding functional annotations to hg19's SNPs (131). | 15 Nov 2010
NHGRI Catalog of Published Genome-Wide Association Studies, GWAS (data update) | 09 Nov 2010
HGDP Alleles | 05 Nov 2010
NHGRI Catalog of Published Genome-Wide Association Studies (data update) | 12 Oct 2010
DGV - data update (v9) | 09 Sep 2010
Human RNA Editing | 07 Sep 2010
UCSF Brain DNA methylation | 27 Aug 2010
ENCODE Regulation | 12 Aug 2010
ENCODE HudsonAlpha RNA-seq | 30 Jul 2010
DECIPHER data | 13 Jul 2010
ENCODE RNA-seq from Yale/UC-Davis/Harvard | 09 Jul 2010
ENCODE Boston Univ (Tullius Lab) ORChID Predicted DNA Cleavage Sites | 29 Jun 2010
ENCODE Broad Histone (update to Release 3) - improved display of Signal subtracks when zoomed in to a range spanning less than 16,500 base pairs. | 16 Jun 2010
ENCODE HAIB TFBS (release 2) | 11 Jun 2010
ENCODE Caltech RNA-seq (Release 2) | 10 Jun 2010
NHGRI Catalog of Published Genome-Wide Association Studies (data update) | 04 Jun 2010
ENCODE Mapability or Uniqueness of Reference Genome (update: adding CRG Alignability data) | 03 Jun 2010
ENCODE GIS Subcellular RNA Localization by Paired End diTag Sequencing | 01 Jun 2010
Burge RNA-seq | 27 May 2010
ENCODE Genome Institute of Singapore RNA-seq | 26 May 2010
ENCODE Yale TFBS (release 3) | 26 May 2010
ENCODE RIKEN RNA Subcellular Localization by CAGE Tags (Release 2) | 24 May 2010
ENCODE Duke Affy All-Exon Arrays | 24 May 2010
tRNA Genes | 18 May 2010
ENCODE Univ. Washington Digital DNase Genomic Footprinting | 17 May 2010
Human Seq | 07 May 2010
S SNPs | 07 May 2010
Cand. Gene Flow | 07 May 2010
Neandertal Seq | 07 May 2010
Neandertal Cntgs | 07 May 2010
5% Lowest S | 07 May 2010
Sel Swp Scan (S) | 07 May 2010
Neandertal Mito | 07 May 2010
H-C Coding Diffs | 07 May 2010
ENCODE Genome Institute of Singapore DNA Paired-End Ditags | 19 Apr 2010
Fixed corrupt table from ENCODE pilot project: Gencode Gene Annotations (March 2007) | 09 Apr 2010
NHGRI Catalog of Published Genome-Wide Association Studies (data update) | 06 Apr 2010
ENCODE Open Chromatin (release 3) | 31 Mar 2010
ENCODE Histone Modifications by Broad Institute ChIP-seq (release 3) | 23 Mar 2010
ENCODE UW Affy All-Exon Arrays (release 2) | 18 Mar 2010
UW DNaseI HS (release 3) | 11 Mar 2010
ENCODE Histone Modifications by Univ. Washington ChIP-seq | 11 Mar 2010
ENCODE HudsonAlpha Methyl-seq | 05 Mar 2010
NHGRI Catalog of Published Genome-Wide Association Studies (data update) | 03 Mar 2010
ENCODE Gencode Gene Annotations (Version 3c) | 26 Feb 2010
ENCODE Cold Spring Harbor Labs Small RNA-seq | 26 Feb 2010
GWAS Catalog | 18 Feb 2010
ENCODE Univ. Washington DNaseI Hypersensitivity by Digital DNaseI (Release 2) | 03 Feb 2010
SNP Array (update: Illumina CytoSNP-12, Illumina Human660W-Quad, & Illumina HumanOmni1-Quad) | 13 Jan 2010
ENCODE Broad Histone Release 2 (release 2) | 18 Dec 2009
ENCODE Caltech RNA-seq Map Algorithm | 18 Dec 2009
ENCODE Cold Spring Harbor Labs Long RNA-seq (Release 2: GM12878, K562 whole cell) | 17 Dec 2009
TransMap Alignments update | 17 Dec 2009
ENCODE Open Chromatin, Duke/UNC/UT (Release 2) | 04 Dec 2009
lsSnpPdb update: updates Mappings to PDB Protein Structures on SNPs(130) details page and the LS-SNP links from the UCSC Genes details page. | 04 Dec 2009
Added link to The GeneNetwork from the UCSC Genes details page. | 02 Dec 2009
ENCODE RIKEN CAGE Loc: updated download files | 30 Nov 2009
DGV - changed color on inversions. no change in data from 2009-08-12 release. | 05 Nov 2009
Gene Sorter and UCSC Genes otherOrgs links to yeast sacCer2 | 02 Nov 2009
OMIM Genes | 27 Oct 2009
Genome Variants (Added Korean (SJK) and 1000 Genomes high-coverage pilot individuals (NA12878, NA12891, NA12892, NA19240)) | 15 Oct 2009
ENCODE Yale TFBS (Update several subtracks; add new subtracks) | 14 Oct 2009
ENCODE Affymetrix/CSHL Subcellular RNA Localization by Tiling Array (Update: GM12878 Nucleolus Total, HepG2 Nucleus PolyA+ and PolyA-, HepG2 Nucleolus Total) | 02 Oct 2009
DGV: Updated to version 8. | 02 Oct 2009
ENCODE NHGRI Elnitski Negative Regulatory Elements | 24 Sep 2009
Agilent Array (two new subtracks: HRD 1x1m and CNV 2x105k) | 17 Sep 2009
sno/miRNA(wgRna)-data update | 15 Sep 2009
ENCODE UW Affy All Exon Arrays | 15 Sep 2009
dbSNP build 130: corrected functional annotations from dbSNP (- strand mRNA, swapped near-gene-3 and near-gene-5) | 14 Sep 2009
ENCODE Common Cell-Type Copy Number Variation | 11 Sep 2009
ENCODE HudsonAlpha Methyl-seq | 11 Sep 2009
ENCODE HudsonAlpha CpG Methylation by Illumina Methyl27 | 11 Sep 2009
ENCODE Univ. Washington DNaseI Hypersensitivity by Digital DNaseI | 11 Sep 2009
Vega Genes (build 35 update) | 09 Sep 2009
ENCODE HudsonAlpha CHIP-seq (Correction to labels and metadata - TAF1) | 13 Aug 2009
ENCODE RIKEN RNA Subcellular Localization by CAGE Tags: PolyA- in K562 nucleus and cytosol, PolyA- in prostate whole cell | 13 Aug 2009
ENCODE Cold Spring Harbor Labs Long RNA-seq (K562) | 11 Aug 2009
Ensembl gene update to version 54 | 07 Aug 2009
ENCODE NHGRI Elnitski Bi-directional Promoters | 30 Jul 2009
ENCODE Helicos RNA-seq (K562) | 28 Jul 2009
ENCODE Mapability or Uniqueness of Reference Genome | 24 Jul 2009
Simple Nucleotide Polymorphisms (dbSNP build 130) | 16 Jul 2009
ENCODE Affymetrix/CSHL Subcellular RNA Localization by Tiling Array | 06 Jul 2009
ENCODE Open Chromatin, Duke/UNC/UT | 26 Jun 2009
ENCODE RIKEN RNA Subcellular Localization by CAGE Tags | 09 Jun 2009
UW Predicted Nucleosome Occupancy. Fix data truncation on chromosome 3 | 05 Jun 2009
ENCODE HudsonAlpha Transcription Factor Binding Sites by ChIP-seq | 05 Jun 2009
UCSC to Ensembl chrom name conversion and haplotype lift | 19 May 2009
FOX2 CLIP-seq (new clusters subtrack) | 12 May 2009
ENCODE Gencode Gene Annotations | 08 May 2009
UCSC Genes: update to some secondary tables | 07 May 2009
HGDP XP-EHH | 30 Apr 2009
HGDP Hetrzygsty | 30 Apr 2009
Sestan Brain | 29 Apr 2009
LiftOver to hg19 | 27 Apr 2009
Vega Genes (build 33 update) | 21 Apr 2009
ENCODE SUNY Albany RNA Binding Proteins by RIP-chip | 08 Apr 2009
ENCODE Histone Modifications by Broad Institute ChIP-seq (Raw Signal tracks) | 03 Apr 2009
ENCODE Histone Modifications by Broad Institute ChIP-seq | 03 Apr 2009
OMIM Genes | 03 Apr 2009
DGV: Updated to version 7. | 26 Mar 2009
affyExonTissues (initial release) | 16 Mar 2009
ENCODE Transcription Factor Binding Sites by ChIP-seq from Yale/UC-Davis/Harvard | 13 Mar 2009
ENCODE cell culture protocols | 09 Mar 2009
DGV: Removed extraneous thin bars that implied only that there is overlap with another item. | 24 Feb 2009
Illumina's Human1M-Duo Genotyping BeadChip | 24 Feb 2009
Links to LS-SNP/PDB site and links to launch the Chimera 3D protein structure viewer (from Gene details and SNP details pages) | 20 Feb 2009
Ensembl Genes v52 | 18 Feb 2009
Repeating Elements (by RepeatMasker version 3.2.7) & Fragments of Interrupted Repeats Joined by RepeatMasker ID (RM version 3.2.7) | 05 Feb 2009
Vertebrate Multiz Alignment & Conservation (44 Species) | 29 Jan 2009
agilentProbes (formerly agilentCgh; 5 new probesets) | 27 Jan 2009
agilentProbes update (formerly agilentCgh) | 23 Jan 2009
ENCODE portal update for production phase | 23 Jan 2009
FOX2 adaptor-trimmed CLIPseq reads and density plots | 12 Jan 2009
ENCODE 36-Way TBA Alignments and Conservation | 19 Dec 2008
Eur. Inst. Oncology/J. C. Venter Inst. Nuclease Accessible Sites | 26 Nov 2008
Basewise Conservation by PhyloP for 28-Species Vertebrate Multiz Alignment | 26 Nov 2008
Enable isPCR on UCSC Gene set to amplify exons only. | 26 Nov 2008
Medaka Chain and Net | 19 Nov 2008
DGV: Updated to version 6. | 19 Nov 2008
Alignments of Illumina WG-6 3.0 Probe set | 30 Oct 2008
Added alignments of non-coding RNAs (NR_*) to RefSeq and Xeno-RefSeq tracks. | 27 Oct 2008
automated rebuilding of transcription start upstream fasta and MAF files based on genbank or refseq tracks. | 16 Oct 2008
HGSV Discordant | 01 Oct 2008
Removed 12 non-coding genes | 23 Sep 2008
Converted MGC track to PSL (to allow for alignment visualization) | 22 Sep 2008
Converted ORFeome tracks to PSL (to allow for alignment visualization) | 16 Sep 2008
UCSC Genes (Update of UCSC Genes set. Brings in CCDS coding regions, and also RefSeq, GenBank, SwissProt, and trEMBL data from the past year.) | 03 Sep 2008
Dropped "NIMH Bipolar" and "Wellcome Trust Case Control Consortium" per new NIH policy on genome-wide association studies. | 29 Aug 2008
Ensembl gene update (version 50) | 25 Aug 2008
DGV: Updated to version 5. | 21 Aug 2008
Predicted Nucleosome Occupancy from University of Washington | 18 Aug 2008
UniGene Alignments update | 11 Aug 2008
SNPs (dbSNP build 129) | 01 Aug 2008
NKI Nuclear Lamina tracks | 23 Jul 2008
Positively Selected Genes (6 species) | 18 Jul 2008
TransMap | 17 Jul 2008
Chains & Nets to Chimp (panTro2) updated with new blastz matrix | 15 Jul 2008
Guinea Pig Chain and Net | 11 Jun 2008
Lamprey Chain/Net/LiftOver (petMar1) | 10 Jun 2008
Lancelet Chain/Net/LiftOver (braFlo1) | 10 Jun 2008
C/D and H/ACA Box snoRNAs, scaRNAs, and microRNAs from snoRNABase and miRBase (track update) | 05 Jun 2008
Vega Genes - Vega Annotations, Vega Annotated Pseudogenes and Immunoglobulin Segments | 04 Jun 2008
Agilent Catalog Oligonucleotide CGH Microarray probesets | 04 Jun 2008
Update of CCDS annotations | 04 Jun 2008
DGV | 23 May 2008
Marmoset Chain/Net/LiftOver (calJac1) | 24 Apr 2008
Affymetrix ENCODE Extension Transcription Sites & Signal | 16 Apr 2008
Ensembl v49 gene predictions | 15 Apr 2008
Chain track, Net track, and liftOver file to bosTau4 | 08 Apr 2008
UCSC Genes link to Allen Institute for Brain Science - Gene Expression in the Human Cortex website | 20 Mar 2008
SNPs (dbSNP build 128) | 11 Mar 2008
Adds a link to HuGE database from Known Gene details page. | 06 Mar 2008
HapMap Linkage Disequilibrium - Phase II - from phased genotypes (replaces the HapMap LD Unphased track) | 29 Feb 2008
Updated with CCDS genes (as of 2008-02-01) | 12 Feb 2008
Genetic Association Studies of Complex Diseases and Disorders (data update) | 16 Jan 2008
Link to SeattleSNPs PGA database from UCSC Genes page | 08 Jan 2008
Link to geneTests database from UCSC Genes page | 08 Jan 2008
CCDS update (as of 2007-12-12) | 20 Dec 2007
encodeAffyEcSignal | 13 Dec 2007
encodeAffyEcSites | 13 Dec 2007
Affy Tx sRNA Sig (lifted from hg17) | 12 Dec 2007
Affy Tx sRNA Reg (lifted from hg17) | 12 Dec 2007
Affy Tx lRNA Sig (lifted from hg17) | 12 Dec 2007
Affy Tx lRNA Reg (lifted from hg17) | 12 Dec 2007
HapMap LD Unph. | 07 Dec 2007
NIMH Bipolar Disease track (and Genome Graphs built-in data) | 20 Nov 2007
Case Control Consortium track (and Genome Graphs built-in data) | 20 Nov 2007
ORegAnno track update | 07 Nov 2007
Uppsala ChIP | 01 Nov 2007
TargetScan miRNA Regulatory Sites | 01 Nov 2007
Zebrafish Chain/Net/LiftOver (danRer5) | 29 Oct 2007
Vista HMR-Conserved Non-coding Human Enhancers from LBNL updated. | 26 Oct 2007
lift rnaGene from hg17 | 24 Oct 2007
ENCODE NHGRI DIPs (lift from hg17) | 23 Oct 2007
Updated mouse column in Gene Sorter and in Orthologous Genes section of gene details pages to mm9 UCSC Genes | 19 Oct 2007
SNP Array Affy 6 (data update) | 17 Oct 2007
Added CONTRAST gene predictions | 17 Oct 2007
Whole-Genome ENCODE LI/UCSD TAF1 Super Track | 17 Oct 2007
N-SCAN PASA-EST subtrack (corrected naming scheme) | 16 Oct 2007
Human Quantitative Trait Loci from RGD | 15 Oct 2007
wgRna (new miRnas added) | 15 Oct 2007
SGP Gene Predictions Using Mouse/Human Homology (data update) | 15 Oct 2007
Gencode RACEfrags (strand information added) | 12 Oct 2007
BU OrChID | 12 Oct 2007
ENCODE data migration from hg17 | 08 Oct 2007
Interrupted Rpts | 01 Oct 2007
GIS PET RNA and GIS ChIP-PET tracks: lifted from hg17 and moved out of Encode to group Expression and Regulation. Added 3 new subtracks: wgEncodeGisChipPetHes3H3K27me3 (belongs to wgEncodeGisChipPetAll) wgEncodeGisChipPetHes3H3K4me3 (belongs to wgEncodeGisChipPetAll) wgEncodeGisRnaPetHes3 (belongs to wgEncodeGisRnaPet) | 28 Sep 2007
Swiss Institute of Bioinformatics, SIB Genes initial release | 25 Sep 2007
Swiss Institute of Bioinformatics Alt-Splicing initial release. | 25 Sep 2007
Intron Size column for Gene Sorter | 21 Sep 2007
CDS Score column for Gene Sorter | 17 Sep 2007
Gene Category column for Gene Sorter | 17 Sep 2007
Adding Coding SNP column to gene sorter | 13 Sep 2007
update to 7X Reg Potential to fix missing data for chroms 3,4,9,10,20,21 | 07 Sep 2007
FISH Clones (data update) | 06 Sep 2007
Initial dm3 Regulatory elements from Open Regulatory Annotation (ORegAnno) release; updated hg18 ORegAnno track | 06 Sep 2007
AceView Genes (replacing the initial data which was liftOver'd from hg17) | 05 Sep 2007
Gene Boundaries as Defined by RNA and Spliced EST Clusters | 30 Aug 2007
Mouse (mm9) Chain and Net tracks and liftOver file | 28 Aug 2007
Updated Drosophila column in Gene Sorter from dm2 to dm3 FlyBase genes | 28 Aug 2007
SNP Arrays | 02 Aug 2007
HMR Conserved Transcription Factor Binding Sites (data update) | 20 Jul 2007
removed "e-rows" from the upstream MAF files | 09 Jul 2007
Augustus | 09 Jul 2007
HapMap SNPs | 09 Jul 2007
N-SCAN composite track: ab-inito, PASA cDNA clusters | 02 Jul 2007
SwitchGear Genomics Transcription Start Sites | 27 Jun 2007
Most Conserved | 25 Jun 2007
Conservation (28 vertebrate alignment) | 25 Jun 2007
CGAP SAGE | 15 Jun 2007
sno/miRNA(wgRna)-data update | 31 May 2007
Structural Variation (9 subtracks) | 08 May 2007
Eponine Predicted Transcription Start Sites | 03 May 2007
Clones from genbank ORFeome collaboration. | 02 May 2007
Exapted Repeats (Conserved non-exonic regions that were deposited by mobile elements) | 30 Apr 2007
ORegAnno track update | 30 Apr 2007
Locus Variants update (new LSDBs added, old ones updated) | 27 Apr 2007
Update of dmBlastTab tables (to dm2) to coincide with Fly Base v4.3 Genes | 20 Apr 2007
ACEScan Alternate exon finder | 12 Apr 2007
Chains Nets and liftOvers to fr2 | 11 Apr 2007
Update of hg18 xxBlastTab tables to coincide with UCSC Genes | 06 Apr 2007
Alt Events | 06 Apr 2007
Old Known Genes | 06 Apr 2007
UCSC Genes | 06 Apr 2007
Added initial hg18 CCDS release, updated hg17 CCDS | 12 Mar 2007
synteny-filter update for xxBlastTab for HMR (hg18, hg17, mm8, mm7, rn4) | 27 Feb 2007
Locus Variants (Jan 2007 snapshot) | 20 Feb 2007
sno/miRNA(wgRna)-data update | 13 Feb 2007
Added NCBI Clone Validation information to details of MGC genes | 12 Jan 2007
Exoniphy | 13 Dec 2006
AceView Genes (lifted from hg17) | 08 Dec 2006
SNP Alignment Display | 01 Dec 2006
Updated HMR Conserved Transcription Factor Binding Sites | 20 Nov 2006
Coverage track reworked to be more accurate | 20 Nov 2006
Yale Transcriptionally Active Regions (TARs) (Bertone data) | 07 Nov 2006
HMR Conserved Transcription Factor Binding Sites | 03 Nov 2006
Regulatory elements from Open Regulatory Annotation (ORegAnno) | 03 Nov 2006
AffyHuEx1.0 (Probe Set locations for Affymetrix Human Exon Genechip) | 24 Oct 2006
Locus Variants (Sept 2006 snapshot) | 24 Oct 2006
SNPs (new function data from dbSNP) | 09 Oct 2006
Update to UCSC Known Genes color coding scheme | 03 Oct 2006
poly(A) DB | 03 Oct 2006
Protein to Protein Interaction Network by Erich Wanker (Gene Sorter column) | 18 Aug 2006
Protein to Protein Interaction Network by Marc Vidal (Gene Sorter column) | 18 Aug 2006
Exon Primer links in Known Genes | 11 Aug 2006
Self Net downloads | 02 Aug 2006
Segmental Dups | 01 Aug 2006
Microsatellite Track: Di-nucleotide and Tri-nucleotide Repeats | 01 Aug 2006
Update to BAC End Pairs track, recovering previously filtered BAC Ends | 28 Jul 2006
gene prediction peptide tables | 24 Jul 2006
Rat Ortholog column of Gene Sorter and Known Gene details updated to rn4 | 20 Jul 2006
SNP build 126 | 30 Jun 2006
EvoFold (changed documentation on description page) | 29 Jun 2006
Superfamily track | 27 Jun 2006
Human Chained Self Alignments | 27 Jun 2006
regPotential7X data download files for hg18, hg17, mm8, mm7 | 26 Jun 2006
ESPERR Regulatory Potential (7 species) | 22 Jun 2006
EvoFold (lifted from hg17, weak predictions filtered out) | 21 Jun 2006
Updated frame annotation for Conservation track to fix error with spliced codons | 15 Jun 2006
Known Genes: added link to Ensembl Transcripts | 05 Jun 2006
Human Proteins | 31 May 2006
wgRna -data update May 2006 | 24 May 2006
First Exon Finder | 18 May 2006
Geneid Gene Predictions | 11 May 2006
H-Inv DB link from Known Gene page | 09 May 2006
Initial hg18 release (using NCBI Build 36.1): Chromosome Band; STS Markers; FISH Clones; Recomb Rate; Map Contigs; Assembly; Gap; Coverage; BAC End Pairs; Fosmid End Pairs; GC Percent; Known Genes; Proteome Browser; Gene Sorter; Human and NonHuman RefSeq Genes; MGC Genes; N-SCAN Genes; Genscan Genes; sno/miRNA, Human and NonHuman mRNAs; Spliced ESTs; Human and NonHuman ESTs; H-Inv Genes; Repeat Masker; Simple Repeats; Allen Brain; GNF Atlas2; GNF Ratio; CpG Islands; Affy: U133, U133Plus2, U95, GNF1H. Conservation; Most Conserved; Chains & Nets: Fugu, Tetraodon, Zebrafish, X. tropicalis, Chicken, Cow, Dog, Rat, Mouse, Rhesus, Chimp; RepeatMasker; Simple Repeats. Downloads: bigZips, chromosomes, database, liftOvers, multiz, phastCons. | 14 Apr 2006
Human May 2004 (NCBI35/hg17) (hg17, NCBI Build 35)
Track/Table Name | Release Date
DGV - data update (v10) | 04 Mar 2011
DGV - data update (v9) | 09 Sep 2010
DGV - changed color on inversions. no change in data from 2009-08-12 release. | 05 Nov 2009
DGV: Updated to version 8. | 02 Oct 2009
liftOver to hg19 | 28 Apr 2009
DGV: Updated to version 7. | 26 Mar 2009
DGV: Removed extraneous thin bars that implied only that there is overlap with another item. | 24 Feb 2009
FOX2 adaptor-trimmed CLIPseq reads and density plots | 12 Jan 2009
Enable isPCR on UCSC Gene set to amplify exons only. | 26 Nov 2008
DGV: Updated to version 6. | 19 Nov 2008
Added alignments of non-coding RNAs (NR_*) to RefSeq and Xeno-RefSeq tracks. | 27 Oct 2008
HGSV Validated | 22 Oct 2008
automated rebuilding of transcription start upstream fasta and MAF files based on genbank or refseq tracks. | 16 Oct 2008
HGSV Discordant | 01 Oct 2008
Converted MGC track to PSL (to allow for alignment visualization) | 22 Sep 2008
Converted ORFeome tracks to PSL (to allow for alignment visualization) | 16 Sep 2008
Dropped "NIMH Bipolar" and "Wellcome Trust Case Control Consortium" per new NIH policy on genome-wide association studies. | 29 Aug 2008
DGV: Updated to version 5. | 21 Aug 2008
DGV | 23 May 2008
Affymetrix ENCODE Extension Transcription Sites & Signal | 16 Apr 2008
Adds a link to HuGE database from Known Gene details page. | 06 Mar 2008
Updated with CCDS genes (as of 2008-02-01) | 12 Feb 2008
HapMap SNPs. Data correction of chimp orthologous alleles. | 06 Feb 2008
Link to geneTests database from UCSC Genes page | 08 Jan 2008
CCDS update (as of 2007-12-12) | 17 Dec 2007
Affy Tx sRNA Sig ( renamed tables and files to fix the missing track ) | 11 Dec 2007
NIMH Bipolar Disease track (and Genome Graphs built-in data) | 20 Nov 2007
Case Control Consortium track (and Genome Graphs built-in data) | 20 Nov 2007
Vista HMR-Conserved Non-coding Human Enhancers from LBNL updated. | 26 Oct 2007
ENCODE TBA SCONE Conservation (Update) | 19 Oct 2007
update to 7X Reg Potential to fix missing data for chroms 4,8,9 | 07 Sep 2007
ENCODE UC Davis ChIP-chip NimbleGen (E2F1, c-Myc, TAF, POLII) | 24 Jul 2007
ENCODE Yale ChIP-chip Sites - Jun07 batch | 13 Jul 2007
ENCODE Yale ChIP-chip Sig - Jun07 batch | 13 Jul 2007
ENCODE Yale ChIP-chip Pval - Jun07 batch | 13 Jul 2007
ENCODE Yale ChIP-chip Sites - Apr07 batch | 13 Jul 2007
ENCODE Yale ChIP-chip Sig - Apr07 batch | 13 Jul 2007
ENCODE Yale ChIP-chip Pval - Apr07 batch | 13 Jul 2007
ENCODE Yale ChIP-chip Sites - Update to Jan07 batch | 13 Jul 2007
ENCODE Yale ChIP-chip Sig - Jan07 batch | 13 Jul 2007
ENCODE Yale ChIP-chip Pval - Jan07 batch | 13 Jul 2007
ENCODE Yale ChIP-chip Sites Update to Nov06 batch | 13 Jul 2007
ENCODE Yale ChIP-chip Sig - Nov06 batch | 13 Jul 2007
ENCOE Yale ChIP-chip Pval - Nov06 batch | 13 Jul 2007
removed "e-rows" from the upstream MAF files | 09 Jul 2007
SwitchGear Genomics Transcription Start Sites | 27 Jun 2007
HapMap SNPs. Data correction. | 25 Jun 2007
Affy Tx sRNA Sig | 19 Jun 2007
Affy Tx lRNA Sig | 19 Jun 2007
Affy Tx sRNA Reg | 19 Jun 2007
Affy Tx lRNA Reg | 19 Jun 2007
ENCODE University of Virginia DNA Replication Origins (data update) | 30 May 2007
ENCODE Duke Dnase/chip - Feb07 batch (data addition) | 21 May 2007
HapMap SNPs | 19 May 2007
ENCODE Gencode RACEfrags | 18 May 2007
ENCODE Gencode Gene Annotations (March 2007) | 04 May 2007
Eponine Predicted Transcription Start Sites | 03 May 2007
Structural Variation: new subtrack for Redon data | 02 May 2007
Structural Variation: data correction for Conrad subtrack | 02 May 2007
Clones from genbank ORFeome collaboration. | 02 May 2007
Locus Variants update (new LSDBs added, old ones updated) | 27 Apr 2007
Update 3 subtracks with missing data | 17 Apr 2007
ENCODE UCD Ng ChIP Hits (update of cMyc and E2F1 data) | 17 Apr 2007
Vista HMR-Conserved Non-coding Human Enhancers from LBNL | 12 Apr 2007
ACEScan Alternate exon finder | 12 Apr 2007
Augustus Gene Predictions (two subtracks: Hints, and de novo). This composite track replaces the Augustus ab initio track. | 12 Apr 2007
Added initial hg18 CCDS release, updated hg17 CCDS | 12 Mar 2007
synteny-filter update for xxBlastTab for HMR (hg18, hg17, mm8, mm7, rn4) | 27 Feb 2007
ENCODE Yale RFBR (Regulatory Factor Binding Regions) | 21 Feb 2007
Locus Variants (Jan 2007 snapshot) | 20 Feb 2007
ENCODE: UCSC EvoFold (Encode predictions analyzed in Washietl, Pedersen, et al., 2007). Replaces TBA23 EvoFold data. | 13 Feb 2007
ENCODE - University of Vienna, RNA secondary structure predicted by RNAz | 16 Jan 2007
Added NCBI Clone Validation information to details of MGC genes | 12 Jan 2007
ENCODE Yale RNA (update with October 2005 freeze data) | 10 Jan 2007
ENCODE UW/Reg QCP DNaseI Sens (replaces the following three tracks: UW/Reg DNaseI HSs, UW/Reg Q/A, UW DNase GM) | 07 Dec 2006
ENCODE Duke/NHGRI DNase (New Chip method in HepG2, Hela, GM, and CD4+) | 05 Dec 2006
SNP Alignment Display | 01 Dec 2006
ENCODE UT-Austin STAGE (update to add STAT1 tags) | 29 Nov 2006
Markers greater than 5,000 nt were removed. | 14 Nov 2006
ENCODE GIS Chip-PET (P53 in HCT116, STAT1 in HeLa, c-Myc in P493) | 07 Nov 2006
Yale Transcriptionally Active Regions (TARs) (Bertone data) | 07 Nov 2006
HMR Conserved Transcription Factor Binding Sites (data reloaded) | 06 Nov 2006
Locus Variants (Sept 2006 snapshot) | 24 Oct 2006
ENCODE NHGRI/PSU/UCSC TBA Conserved Elements | 05 Oct 2006
ENCODE NHGRI/PSU/UCSC TBA Conservation | 05 Oct 2006
ENCODE NHGRI/PSU TBA Alignments | 05 Oct 2006
ENCODE MSA Consensus Constrained Elements | 04 Oct 2006
ENCODE UC Berkeley MAVID Alignments | 04 Oct 2006
ENCODE UC Berkeley MAVID Conservation | 04 Oct 2006
ENCODE UC Berkeley MAVID Conserved Elements | 04 Oct 2006
ENCODE Stanford MLAGAN Conserved Elements | 04 Oct 2006
ENCODE Stanford MLAGAN Conservation | 04 Oct 2006
ENCODE Stanford MLAGAN Alignments | 04 Oct 2006
ENCODE MSA Alignment Gaps | 04 Oct 2006
ENCODE MSA Alignment Agreement | 04 Oct 2006
SNP Arrays | 03 Oct 2006
Update to UCSC Known Genes color coding scheme | 03 Oct 2006
Update CCDS to 2006-09-20 snapshot | 22 Sep 2006
CCDS (annotation update) | 29 Aug 2006
Retrotransposon Insertion Polymorphisms in Humans | 23 Aug 2006
ENCODE UNC FAIRE track (data update) | 21 Aug 2006
Protein to Protein Interaction Network by Erich Wanker (Gene Sorter column) | 18 Aug 2006
Protein to Protein Interaction Network by Marc Vidal (Gene Sorter column) | 18 Aug 2006
update CCDS to 2006-08-15 snapshot | 17 Aug 2006
8 new subtracks for ENCODE Sanger ChIP-chip track | 17 Aug 2006
Microsatellite Track: Di-nucleotide and Tri-nucleotide Repeats | 01 Aug 2006
Structural Variation | 28 Jul 2006
Rat Chain/Net(rn4) | 13 Jul 2006
EvoFold (changed documentation on description page) | 29 Jun 2006
regPotential7X data download files for hg18, hg17, mm8, mm7 | 26 Jun 2006
ENCODE University of Uppsala, Sweden ChIP-chip Na-butyrate time series | 26 Jun 2006
ESPERR Regulatory Potential (7 species) | 22 Jun 2006
ENCODE UNC FAIRE Peaks (ChIPOTle) Apr. 2006 Update, new subtrack added to UNC FAIRE | 15 Jun 2006
Updated frame annotation for Conservation track to fix error with spliced codons | 15 Jun 2006
Dog Chain/Net/LiftOver(canFam2), regenerated with better parameters | 15 Jun 2006
Human Disease Variants and Other Mutations | 14 Jun 2006
ENCODE UW DNase/Array GM06990 | 13 Jun 2006
ENCODE Sanger ChIP (additional data in HFL-1 cell line) | 24 May 2006
ENCODE Detection of LinEage Specific Selection (DLESS) | 19 May 2006
SNP build 125 | 01 May 2006
MicroRNA target sites in 3' UTRs as predicted by PicTar | 27 Apr 2006
Most Conserved - data update | 27 Apr 2006
Conservation - Data Update (fix overlaps) | 27 Apr 2006
Most Conserved (correction to make rhesus non-informative) | 28 Mar 2006
Conservation - Data Update (rhesus made non-informative) | 22 Mar 2006
VisiGene (Allen Brain Atlas) | 17 Mar 2006
BosTau2, DanRer3 chains/net/liftOver | 15 Mar 2006
Most Conserved (17-way alignment phastCons conserved elements) | 10 Mar 2006
Conservation (17-way vertebrate multiple alignment) | 10 Mar 2006
RheMac2 chain/net/liftOver | 06 Mar 2006
sno/miRNA (wgRna) | 21 Feb 2006
HapMap LD (release 20) | 21 Feb 2006
Improved searching capability for VisiGene | 16 Feb 2006
Improved searching capability for Known Genes | 03 Feb 2006
gladHumESDistance (data update) | 01 Feb 2006
Superfamily (data update) | 30 Jan 2006
Comparatives downloads (replacements for overlapping axtNet alignments) | 18 Jan 2006
ENCODE Yale ChIP Sites (data replaced with 5 new transcription factors). Previous track Yale ChIP Sites renamed Yale STAT1 Sites. | 13 Jan 2006
ENCODE Yale ChIP Signal (data replaced with 5 new transcription factors). Previous track Yale ChIP Signal renamed Yale STAT1 Signal. | 13 Jan 2006
ENCODE Yale ChIP pVal (data replaced with 5 new transcription factors). Previous track Yale ChIP pVal renamed Yale STAT1 pVal. | 13 Jan 2006
ENCODE EGASP Full (Correction) | 12 Jan 2006
Hgdownloads update: goldenPath/hg17/vs{PanTro1,CanFam1,Fr1,DanRer1,Mm5}/axtNet/{chr5.axt.gz,md5sum.txt} | 12 Jan 2006
ENCODE EGASP Partial (data correction) | 11 Jan 2006
Recomb Hotspots: ENCODE recombination hotspots and rates | 06 Jan 2006
Updated hg17 -> mm6 liftOver (Downloads, Batch Coordinate Conversion utility) | 06 Jan 2006
Recomb Rates and Hotspots: from HapMap and Perlegen data | 04 Jan 2006
LiftOvers: fr1, tetNig1, xenTro1, galGal2, bosTau2, rheMac1, panTro1, hg17, rn3 -> mm7; fr1, tetNig1, xenTro1, galGal2, panTro1 -> mm6; galGal2 -> danRer2, mm5, hg17, monDom1, tetNig1, xenTro1; rheMac1 -> hg17; panTro1 -> hg16, hg17 | 03 Jan 2006
ENCODE Uppsala Chip (University of Uppsala, Sweden ChIP-chip coordinate corrections) | 03 Jan 2006
ENCODE Yale TAR (Replace June data with new methods) | 02 Jan 2006
ENCODE UVa DNA Rep Ori (University of Virginia DNA Replication Origins, Oct 2005 Freeze) | 29 Dec 2005
ENCODE UT-Austin STAGE (Sequence Tag Analysis of Genomic Enrichment), c-Myc in HeLa cells | 28 Dec 2005
Dog Chain/Net/LiftOver (canFam2) | 22 Dec 2005
ENCODE Affy Transfrags (updated HeLa data) | 21 Dec 2005
ENCODE Affy RNA Signal (updated HeLa data) | 21 Dec 2005
Cow Synteny | 20 Dec 2005
mRNA, RefSeq mRNA, and native ESTs: Realigned and filtered -- improvements in process. | 16 Dec 2005
ENCODE UVa DNA Rep TR50 (University of Virginia DNA Smoothed Timing at 50% Replication, Oct 2005 Freeze) | 16 Dec 2005
ENCODE UVa DNA Rep Seg (University of Virginia DNA Replication Temporal Segmentation, Oct 2005 Freeze) | 02 Dec 2005
ENCODE Sanger ChIP Hits (Peaks and Centers, Oct 2005 Freeze) | 22 Nov 2005
ENCODE Sanger ChIP (H3, H4 histones in GM, K562 and HeLa cells, Oct 2005 Freeze) | 22 Nov 2005
ENCODE UNC FAIRE (Formaldehyde Assisted Isolation of Regulatory Elements, Oct 2005 Freeze) | 22 Nov 2005
ENCODE UCD Ng ChIP (UC Davis ChIP-chip of E2F1, Myc in HeLa, Oct 2005 Freeze) | 18 Nov 2005
ENCODE Uppsala Chip (University of Uppsala, Sweden ChIP-chip of H3ac,HNF3b,HNF4a,USF1 in HepG2 cells, Oct 2005 Freeze) | 18 Nov 2005
ENCODE Affy Strict Sites (Affymetrix ChIP-chip of 5 factors in HL60 cells, Oct 2005 Freeze) | 18 Nov 2005
ENCODE Affy Strict (Affymetrix ChIP-chip of 5 factors in HL60 cells, Oct 2005 Freeze) | 18 Nov 2005
ENCODE Affy Strict Pval (Affymetrix ChIP-chip on 5 factors, in HL60 cells, Oct 2005 Freeze) | 18 Nov 2005
Allen Brain Atlas Images | 10 Nov 2005
ENCODE Affy RNA (RNA abundance and transfrags, Oct 2005 Freeze) | 07 Nov 2005
ENCODE UT-Austin ChIP (c-Myc and EF24 in HeLa and 20901 fibroblasts, Oct 2005 Freeze) | 07 Nov 2005
ENCODE NHGRI DnaseI-HS (MPSS and Chip methods, in CD4 and GM09660, Oct 2005 Freeze) | 07 Nov 2005
ENCODE GIS PET RNA (update Oct 2005 Freeze and new estrogen-treated MCF7) | 07 Nov 2005
ENODE Genocde Introns (Oct 2005 Freeze) | 07 Nov 2005
ENCODE Gencode Genes (Oct 2005 Freeze) | 07 Nov 2005
Gladstone arrays -- track and Gene Sorter columns | 04 Nov 2005
sno/miRNA (data update) | 27 Oct 2005
ENCODE LI Ng gIF ChIP (Addition of 5 antibodies, in HeLa cells) | 27 Oct 2005
Oxford Recombination Hotspots (from HapMap phase I, release 16a) | 25 Oct 2005
Oxford Recombination Rates (from HapMap phase I, release 16a) | 25 Oct 2005
ENCODE EGASP Update (Add Fgenesh++ corrected predictions) | 14 Oct 2005
Affy Transcription Phase 2 | 14 Oct 2005
Exon Walk | 14 Oct 2005
Exoniphy | 14 Oct 2005
AffyHuEx1.0 (Probe Set locations for Affymetrix Human Exon Genechip) | 14 Oct 2005
NHGRI DNaseI-HS | 14 Oct 2005
ENCODE GIS STAT1 +/- gIF HeLa | 14 Oct 2005
N-SCAN Gene Predictions | 04 Oct 2005
ENCODE UVa DNA Rep Seg, UVa DNA Rep Ori (DNA replication timing segmentation and origins) | 04 Oct 2005
EvoFold (removed non-syntenic predictions and predictions with only 4 pairing bases) | 03 Oct 2005
targetScanS miRNA | 30 Sep 2005
ENCODE YALE MAS TAR (additional data) | 27 Sep 2005
ENCODE YALE MAS RNA (additional data from June freeze) | 27 Sep 2005
Tajima's D, Tajima's D SNPs | 23 Sep 2005
5x Reg Potential | 22 Sep 2005
ENCODE BU Orchid | 21 Sep 2005
ENCODE NHGRI DIPs: Whole Genome Shotgun insertion/deletion polymorphisms from Jim Mullikin/SSAHA | 21 Sep 2005
ENCODE: LI Ng gIF ChIP (HeLa) | 20 Sep 2005
ENCODE: LI Ng Validation (Pol2, Taf1, H3K4me, H3ac) | 20 Sep 2005
ENCODE Sanger ChIP-chip | 20 Sep 2005
ENCODE: Ludwig Institute/UCSD ChIP-chip - Pol II, TAF1, AcH3, H3K4me, SUZ12, and H3K27me antibodies - repackage three existing tracks into one | 20 Sep 2005
ENCODE: Yale ChIP-chip (STAT1 ab, Hela cells, P-Values) | 20 Sep 2005
ENCODE: LI gIF ChIP (HeLa) | 19 Sep 2005
ENCODE HapMap Allele Frequencies | 19 Sep 2005
ENCODE: GIS P53 5FU HCT116 | 19 Sep 2005
ENENCODE: Affy Transfrags, Affy pVal {0,2,8,32}h, Affy Sites {0,2,8,32}h | 16 Sep 2005
ENCODE: Affy RNA Signal | 16 Sep 2005
ENCODE: Yale MAS array, RNA Transcript Map, Placenta, Nimblegen Protocol | 16 Sep 2005
ENCODE: Yale MAS array, RNA Transcriptionally Active Regions, Placenta, Nimblegen Protocol | 16 Sep 2005
ENCODE: Yale ChIP-chip (STAT1 ab, Hela cells, Signal) | 16 Sep 2005
ENCODE: Yale ChIP-chip (STAT1 ab, Hela cells, Binding Sites) | 16 Sep 2005
ENCODE: Yale TAR | 16 Sep 2005
HapMap Coverage: Depth of resequencing for 10 encode regions (work done by Broad and Baylor for the HapMap project) | 16 Sep 2005
ENCODE: Stanford Endogenous Transcript Levels in HCT116 Cells; Stanford ChIP-chip (HCT116, Jurkat, K562 cells; Sp1, Sp3 ChIP); Stanford ChIP-chip Smoothed Score; Stanford Methylation Digest: Be2C, CRL1690, HCT116, HT1080, HepG2, JEG3, Snu182, U87; Stanford Methylation Digest Smoothed Score | 16 Sep 2005
ENCODE: Stanf Promoter | 15 Sep 2005
ENCODE: BU First Exon | 15 Sep 2005
ENCODE: Yale RNA | 15 Sep 2005
ENCODE: Sanger Assoc | 15 Sep 2005
ENCODE: UC Davis ChIP-chip Nimblegen - E2F1 ab, HeLa Cells | 15 Sep 2005
ENCODE: GIS RNA PET | 15 Sep 2005
ENCODE: TBA23 EvoFold (Predictions of RNA Secondary Structure Using TBA23, ENCODE Regions only) | 15 Sep 2005
ENCODE: Known+Pred RNA (Known and Predicted RNA Transcription) | 15 Sep 2005
ENCODE: UW/Regulome DNase I Hypersensitivity Probability | 14 Sep 2005
ENCODE: Regulome DNase I Hypersensitivity | 14 Sep 2005
UW/Regulome Plate Quality | 14 Sep 2005
Regulome DNAse I Hypersensitivity Amplicons | 14 Sep 2005
ENCODE: NHGRI DNaseI-HS | 14 Sep 2005
ENCODE: Riken CAGE - predicted gene start sites | 13 Sep 2005
Updated AceView (acembly) track from NCBI. | 12 Sep 2005
ENCODE Gene Prediction Workshop (EGASP) Updates | 12 Sep 2005
EGASP Partial | 31 Aug 2005
Sangamo/EIO CD34 DNase Hypersensitivity | 30 Aug 2005
EGASP Full | 29 Aug 2005
Gencode Introns | 29 Aug 2005
Gencode Genes | 29 Aug 2005
Aternative Splicing | 29 Aug 2005
sno/miRNA (data update) | 26 Aug 2005
Gene Sorter (updated to pick up Pfam Domains for splice variants in new Known Genes) | 12 Aug 2005
Reloaded table for new known genes | 03 Aug 2005
Gene Sorter: RankProp Score (table reloaded for new Known Genes) | 01 Aug 2005
Gene Sorter support | 29 Jul 2005
Old Known Genes (Table Browser only) | 28 Jul 2005
Rhesus macaque (rheMac1) Chain and Net | 25 Jul 2005
bosTau1ToHg17 and hg17ToBosTau1 liftOver (Downloads, Batch Coordinate Conversion utility) | 22 Jul 2005
rheMac1ToHg17 and hg17ToRheMac1 liftOver (Downloads, Batch Coordinate Conversion utility) | 22 Jul 2005
EvoFold (Predictions of RNA Secondary Structure) | 15 Jul 2005
sno/miRNA (data update) | 13 Jul 2005
augustus gene predictions | 07 Jul 2005
hg17ToXenTro1, hg17ToGalGal2, hg17ToMonDom1, hg17ToTetNig1, hg17ToDanRer2 liftOver (Downloads, Batch Coordinate Conversion utility) | 06 Jul 2005
hg17ToCanFam1 and canFam1ToHg17 liftOver (Downloads, Batch Coordinate Conversion utility) | 05 Jul 2005
Known Genes, Gene Sorter, Proteome Browser (data update, new filtering process) | 15 Jun 2005
Gene Sorter (humanNormal microarray data) | 02 Jun 2005
hg17ToMm6 liftOver (Downloads and browser Batch Coordinate Conversion utility) | 01 Jun 2005
hg17ToRn3 liftOver (Downloads and browser Batch Coordinate Conversion utility) | 01 Jun 2005
Restriction Enzyme mapping (REbase release 505). | 24 May 2005
vega and vegaPseudogene | 10 May 2005
chain/net tracks to mm6 | 05 May 2005
wgRna (data update) | 26 Apr 2005
Retroposed Genes | 21 Apr 2005
add table ccdsKgMap to link ccdsGene to knownGenes | 20 Apr 2005
Cow BAC Ends | 31 Mar 2005
Consensus CDS (X/Y PAR region corrected) | 22 Mar 2005
SNPs (data update: Affy genotyping SNPs) | 11 Mar 2005
CCDS genes (enabled robust details page) | 04 Mar 2005
Non-Human RefSeqs | 04 Mar 2005
STS Markers (updated mapping) | 28 Feb 2005
Yale Pseudo (Processed Pseudogenes from yale) | 25 Feb 2005
Cow Chain/Net | 18 Feb 2005
Tetraodon Ecores | 15 Feb 2005
RGD QTL (data update) | 14 Feb 2005
Gene Bounds (Gene Boundaries as Defined by RNA and Spliced EST Clusters) | 10 Feb 2005
Acembly (AceView Gene Models) | 07 Feb 2005
TFBS Conserved (transcr. factor binding sites) | 04 Feb 2005
SNPs (dbSNP build 124) | 01 Feb 2005
SNP track enhancement to support exceptions from dbSnp. (dbSnp build 123) | 20 Jan 2005
TIGR Gene Index | 10 Jan 2005
sno/miRNA - C/D and H/ACA Box snoRNAs, scaRNAs, and microRNAs from Weber and Griffiths-Jones (replaces the miRNA track) | 07 Jan 2005
Zebrafish (danRer2) Chain and Net | 06 Jan 2005
Gene Sorter extension (rankProp, psi-blast) | 23 Dec 2004
Superfamily | 21 Dec 2004
Proteome Browser (data update) | 18 Dec 2004
Known Genes (data update) | 18 Dec 2004
Gene Sorter (data update) | 18 Dec 2004
miRNA data correction for hsa-mir-30a | 15 Dec 2004
SNPs (track based on 'snp' table, not 'snpMap' table) | 05 Dec 2004
Ensembl Genes | 24 Nov 2004
X. tropicalis Net | 22 Nov 2004
X. tropicalis Chain | 22 Nov 2004
ECgene new track, EST clustering gene prediction | 22 Nov 2004
WSSD Duplication (from Xinwei She and Evan Eichler) | 29 Oct 2004
Segmental Dups (from Xinwei She and Evan Eichler) | 29 Oct 2004
UniGene version 171 added to Human browser | 20 Oct 2004
Affy U133Plus2 | 13 Oct 2004
RDG QTL | 13 Oct 2004
Known Genes (add 3', 5' UTR mRNA secondary structure predictions) | 11 Oct 2004
Known Genes (add BioCyc pathways links) | 11 Oct 2004
SGP Genes | 01 Oct 2004
Conservation (data update), Most Conserved added | 21 Sep 2004
Self Chain | 21 Sep 2004
Gene Sorter Expression Distance (expanded data set) | 16 Sep 2004
ENCODE Regions | 15 Sep 2004
Tetraodon Chain, Net | 13 Sep 2004
MicroRNAs from the miRNA Registry | 09 Sep 2004
Twinscan gene predictions | 08 Sep 2004
Retroposed Genes | 01 Sep 2004
fishClones | 13 Aug 2004
H-Inv (Human gene database, with full-length cDNA clones) | 13 Aug 2004
Gene Sorter Expression Distance | 11 Aug 2004
Gene Sorter Gene Maps | 11 Aug 2004
Gene Sorter Fundamentals | 11 Aug 2004
Geneid | 10 Aug 2004
Initial hg17 release (using NCBI Build 35): Chromosome Band, STS Markers, FISH Clones, Recomb Rate, Map Contigs, Assembly, Gap, Coverage, BAC End Pairs, Fosmid End Pairs, GC Percent, Known Genes, Proteome Browser, RefSeq Genes, MGC Genes, Genscan Genes, Human mRNAs, Spliced ESTs, Human ESTs, NonHuman mRNAs, NonHuman ESTs, CpG Islands, Fugu Blat, Conservation, Fugu Chain, Fugu Net, Zebrafish Chain, Zebrafish Net, Chicken Chain, Chicken Net, Rat Chain, Rat Net, Mouse Chain, Mouse Net, Dog Chain, Dog Net, Chimp Chain, Chimp Net, RepeatMasker, Simple Repeats. Downloads: bigZips, chromosomes, database | 23 Jul 2004
Human July 2003 (NCBI34/hg16) (hg16, NCBI Build 34)
Track/Table Name | Release Date
repair Known Genes Other Orgs links to mouse and elegans | 27 Oct 2009
liftOver to hg19 | 28 Apr 2009
Enable isPCR on UCSC Gene set to amplify exons only. | 26 Nov 2008
Added alignments of non-coding RNAs (NR_*) to RefSeq and Xeno-RefSeq tracks. | 27 Oct 2008
automated rebuilding of transcription start upstream fasta and MAF files based on genbank or refseq tracks. | 16 Oct 2008
Converted MGC track to PSL (to allow for alignment visualization) | 22 Sep 2008
Added NCBI Clone Validation information to details of MGC genes | 12 Jan 2007
Add Conrad, McCarroll and Hinds deletions. | 30 Jun 2006
EvoFold (changed documentation on description page) | 29 Jun 2006
HapMap LD (Phase II; October 2005 data) | 08 Feb 2006
Improved searching capability for Known Genes | 03 Feb 2006
ENCODE EGASP Full (Correction) | 12 Jan 2006
Recomb Hotspots: ENCODE recombination hotspots and rates | 06 Jan 2006
LiftOvers: hg16 -> galgal2, mm4, mm5, mm6, panTro1, pt0, rn3 | 04 Jan 2006
Recomb Rates and Hotspots: from HapMap and Perlegen data | 04 Jan 2006
ENCODE GIS PET RNA (update) | 07 Nov 2005
Oxford Recombination Hotspots (from HapMap phase I, release 16a) | 25 Oct 2005
Oxford Recombination Rates (from HapMap phase I, release 16a) | 25 Oct 2005
AffyHuEx1.0 (Probe Set locations for Affymetrix Human Exon Genechip) | 14 Oct 2005
NHGRI DNaseI-HS | 14 Oct 2005
EvoFold (removed non-syntenic predictions and predictions with only 4 pairing bases) | 03 Oct 2005
ENCODE YALE MAS TAR (additional data) | 27 Sep 2005
ENCODE YALE MAS RNA (additional data from June freeze) | 27 Sep 2005
Tajima's D, Tajima's D SNPs | 23 Sep 2005
Gencode Unannotated Region Classification | 30 Aug 2005
ENCODE Consensus Unannotated Transfrags | 30 Aug 2005
Yale and Affymetrix Unannotated TransFrags | 30 Aug 2005
EGASP Full | 26 Aug 2005
Affymetrix 25 bp Probe Locations | 18 Aug 2005
Yale RNA reloaded to fix off-by-one coordinates | 08 Aug 2005
Yale RNA reloaded to fix off-by-one coordinates | 08 Aug 2005
Yale TAR reloaded to fix off-by-one coordinates | 08 Aug 2005
Affy RNA Signal reloaded to fix off-by-one coordinates | 08 Aug 2005
Affy pVal reloaded to fix off-by-one coordinates | 08 Aug 2005
CNPs; Copy Number Polymorphisms | 29 Jul 2005
Mlagan Alignment (data update) | 26 Jul 2005
ENCODE All Introns Proximal | 17 Jul 2005
ENCODE All Introns Distal | 17 Jul 2005
ENCODE All Intergenic Proximal | 17 Jul 2005
ENCODE All Intergenic Distal | 17 Jul 2005
ENCODE Introns Proximal | 17 Jul 2005
ENCODE Introns Distal | 17 Jul 2005
ENCODE Intergenic Proximal | 17 Jul 2005
ENCODE Intergenic Distal | 17 Jul 2005
TBA23 EvoFold (Predictions of RNA Secondary Structure Using TBA23, ENCODE Regions only) | 15 Jul 2005
EvoFold (Predictions of RNA Secondary Structure) | 15 Jul 2005
HapMap Coverage: Depth of resequencing for 10 encode regions (work done by Broad and Baylor for the HapMap project) | 14 Jul 2005
Regulome DNAse I Hypersensitivity Amplicons | 14 Jul 2005
UW/Regulome Plate Quality | 14 Jul 2005
UW/Regulome DNase I Hypersensitivity Probability | 14 Jul 2005
Regulome DNase I Hypersensitivity | 14 Jul 2005
Consensus Elements: TBA and MLAGAN Union/Intersection | 14 Jul 2005
ENCODE Stanford LAGAN Alignments | 14 Jul 2005
ENCODE: NHGRI/PSU TBA Alignments | 14 Jul 2005
Recombination in 10 ENCODE regions (cM/Mb) | 13 Jul 2005
ENCODE Stanford LAGAN Conserved Elements | 11 Jul 2005
ENCODE Stanford LAGAN Conservation | 11 Jul 2005
Primate Alleles | 08 Jul 2005
Gene Prediction Workshop (EGASP) for Partial ENCODE Regions | 06 Jul 2005
Gene Prediction Workshop (EGASP) All ENCODE Regions | 06 Jul 2005
Stanford Endogenous Transcript Levels in HCT116 Cells; Stanford ChIP-chip (HCT116, Jurkat, K562 cells; Sp1, Sp3 ChIP); Stanford ChIP-chip Smoothed Score; Stanford Methylation Digest: Be2C, CRL1690, HCT116, HT1080, HepG2, JEG3, Snu182, U87; Stanford Methylation Digest Smoothed Score | 06 Jul 2005
ENCODE: Riken CAGE - predicted gene start sites | 06 Jul 2005
ENCODE Gene Prediction Workshop (EGASP) Updates | 05 Jul 2005
ENCODE HapMap Allele Frequencies | 05 Jul 2005
H3K4me3/K562 new subtrack added to Sanger ChIP | 01 Jul 2005
ENCODE: Sanger Assoc | 01 Jul 2005
Whole Genome Shotgun insertion/deletion polymorphisms from Jim Mullikin/SSAHA | 01 Jul 2005
ENCODE: Yale MAS array, RNA Transcriptionally Active Regions, Placenta, Nimblegen Protocol | 27 Jun 2005
ENCODE: Yale MAS array, RNA Transcript Map, Placenta, Nimblegen Protocol | 27 Jun 2005
ENCODE: Affy RNA Signal, Affy Transfrags, Affy pVal {0,2,8,32}h, Affy Sites {0,2,8,32}h | 17 Jun 2005
ENCODE: Yale RNA Transcriptionally Active Regions (TARs) | 17 Jun 2005
ENCODE: Yale RNA Transcript Map (Neutrophil, Placenta and NB4 cells) | 17 Jun 2005
ENCODE: Yale ChIP-chip (STAT1 ab, Hela cells, P-Values) | 15 Jun 2005
ENCODE: Yale ChIP-chip (STAT1 ab, Hela cells, Binding Sites) | 15 Jun 2005
ENCODE: Boston University ORChID | 14 Jun 2005
ENCODE: UC Davis ChIP-chip Nimblegen - E2F1 ab, HeLa Cells | 14 Jun 2005
ENCODE: Yale ChIP-chip (STAT1 ab, Hela cells, Signal) | 14 Jun 2005
ENCODE: Gencode Introns (Intron validation for selected Gencode Genes) | 14 Jun 2005
Gencode Genes (Manual annotations in the ENCODE regions from the Gencode project) | 14 Jun 2005
Retroposed Genes (data update) | 14 Jun 2005
ENCODE: ChIP-PET/GIS (data update, has cluster counts) | 14 Jun 2005
ENCODE: Ludwig Institute/UCSD ChIP-chip - Pol II, TAF1, AcH3, H3K4me, SUZ12, and H3K27me antibodies - repackage three existing tracks into one | 13 Jun 2005
ENCODE: Ludwig Institute/UCSD ChIP-chip - gamma interferon experiments | 13 Jun 2005
ENCODE: GIS RNA PET | 10 Jun 2005
ENCODE: NHGRI DNaseI-HS (data update; now includes sites from activated as well as unactivated cells) | 10 Jun 2005
ENCODE: Sanger ChIP-chip (histones H3,H4 GM06990) | 10 Jun 2005
Affymetrix ChIP-chip (Pol2 RA-stim HL60) Signal in ENCODE Regions (changed from wig to bedGraph) | 08 Jun 2005
Affymetrix ChIP-chip (Pol2 RA-stim HL60) PValue in ENCODE Regions (changed from wig to bedGraph) | 08 Jun 2005
Stanf. Promoter in ENCODE regions (data update; changed to composite track - old name: Promoter/Stanford) | 06 Jun 2005
DNA Rep/UVA in ENCODE regions (reloaded with new data) | 03 Jun 2005
ChIP-PET/GIS (P53 TFBS in ENCODE regions) | 24 May 2005
vega and vegaPseudogene | 10 May 2005
Promoters/BU (Boston Univ. Promoters in ENCODE regions) | 07 May 2005
ENCODE UCSD/Ludwig Chip (acetylated and methylated histone binding) | 06 May 2005
Mouse (March 2005/mm6) Alignment Net | 04 May 2005
Mouse (March 2005/mm6) Chained Alignments | 04 May 2005
ENCODE UCSD Ludwig RNAP, ENCODE UCSD Ludwig TAF1 (tracks combined into composite format) | 29 Apr 2005
ChIp/Sanger (Lysine 4 methylation of histone in ENCODE regions) | 07 Apr 2005
Updates hg16 SNPs to dbSnp build 122, including Affy genotyping SNPs. | 14 Mar 2005
Yale Pseudo (Processed Pseudogenes from yale) | 25 Feb 2005
RNA/Affy Sites (Affymetrix PolyA+ RNA from retinoic acid-stimulated HL60 cells at 4 timepoints, in ENCODE regions) | 31 Jan 2005
RNA/Affy Signal (Affymetrix PolyA+ RNA abundance from retinoic acid-stimulated HL60 cells at 4 timepoints, in ENCODE regions) | 31 Jan 2005
ChIP Affy Pol2 Sites (Affymetrix ChIP-chip of Pol2 from retinoic acid-stimulated HL60 cells at 4 timepoints, in ENCODE regions) | 31 Jan 2005
ChIP Affy Pol2 Pval (Affymetrix ChIP-chip enrichment of Pol2 from retinoic acid-stimulated HL60 cells at 4 timepoints, in ENCODE regions) | 31 Jan 2005
ChIP-chip data in ENCODE regions | 05 Nov 2004
DNA Rep/UVA (ENCODE DNA Replication data from Dutta Lab, University of VIrginia) | 03 Nov 2004
Promoter/Stanford (Promoters in ENCODE regions, from Myers lab at Stanford) | 02 Nov 2004
DNaseI-HS/NHGRI (ENCODE DNaseI Hypersensitive sites, from Collins lab, NHGRI) | 01 Nov 2004
WSSD Overlay (from Xinwei She and Evan Eichler) | 29 Oct 2004
WSSD Coverage (from Xinwei She and Evan Eichler) | 29 Oct 2004
WSSD Duplication (from Xinwei She and Evan Eichler) | 29 Oct 2004
Segmental Dups (from Xinwei She and Evan Eichler) | 29 Oct 2004
Perlegen Haplotypes (8 records changed to correct block ordering) | 11 Oct 2004
Ensembl EST Genes | 10 Sep 2004
Vega Gene: data update (extending 3' UTR for 398 annotations). | 23 Aug 2004
Twinscan: data update (additional exons added for 27 annotations). | 20 Jul 2004
Ensembl Genes: data update (64 annotations changed by 1 or 2 bases). | 20 Jul 2004
Exoniphy: Conserved Exon Predictions | 14 Jul 2004
Retroposed Genes | 19 Jun 2004
H-Inv (Full-length cDNA from the H-Invitational Human Gene Annotation Database) | 08 Jun 2004
ensTranscript and ensGeneXref tables dropped (replaced by ensemblXref3) | 03 Jun 2004
Ensembl Gene (updated to 34d), Superfamily (updated) | 03 Jun 2004
GC% Win20K (dropped - replaced by 5-base window GC Percent track) | 01 Jun 2004
Alt-Splicing (data update) | 27 May 2004
Fugu Chain, Fugu Net (using fr1) | 24 May 2004
STS Markers (updated) | 24 May 2004
TIGR Gene Index | 21 May 2004
Chimp Recip Chain, Chimp Recip Net (updated to panTro1 assembly) | 21 May 2004
Chimp Chain (updated to panTro1 assembly) | 21 May 2004
RNA Genes | 19 May 2004
GC Percent (updated to 5-base window track) | 19 May 2004
TFBS Conserved | 05 May 2004
miRNA (updated) | 05 May 2004
Tetraodon Ecores | 03 May 2004
Microsatellites | 03 May 2004
jaxOrtholog table | 30 Apr 2004
Chicken Chain, Chicken Net (using galGal2) | 29 Apr 2004
Fugu Ecores | 29 Apr 2004
Acembly | 20 Apr 2004
SNPs (updated to dbSNP Build 120) | 20 Apr 2004
RNA Genes | 13 Apr 2004
Hu/Mouse/Rat/Chick removed (replaced by Hu/Chp/Mo/Ra/Chk) | 12 Apr 2004
Hu/Chp/Mo/Ra/Chk | 12 Apr 2004
Known Genes (updated to use proteins040315) | 09 Apr 2004
Affymetrix U133 (updated) | 09 Apr 2004
GNF Atlas 2 | 09 Apr 2004
Affymetrix GNF1H | 09 Apr 2004
ECgene Genes (updated to include new peptide table) | 05 Apr 2004
Human/Mouse/Rat removed (replaced by Hu/Mouse/Rat/Chick) | 29 Mar 2004
Hu/Mouse/Rat/Chick (using mm3, rn3, galGal2) - replaces Human/Mouse/Rat track | 19 Mar 2004
ECgene Genes (updated) | 19 Mar 2004
miRNA | 19 Mar 2004
SGP (updated to use mm4) | 05 Mar 2004
Map Contigs (updated) | 02 Mar 2004
Perlegen (updated) | 02 Mar 2004
Fgenesh++ Genes | 13 Feb 2004
affyU133, affyU95 tables | 10 Feb 2004
Known Genes (updated) | 06 Feb 2004
2X Reg Potential, 3X Reg Potential | 05 Feb 2004
Ensembl Genes (update) | 04 Feb 2004
Mm3 Chain, Mm3 Net removed (replaced by mm4 versions) | 20 Jan 2004
chr{4,8,X,Un}_random_gap, chr{4,8,X,Un}_random_gold tables (updated) | 16 Jan 2004
Chimp Diff | 16 Jan 2004
Affy10K | 14 Jan 2004
Mm4 Net (updates Mouse Net using mm4) | 12 Jan 2004
Mm4 Chain (updates Mouse Chain using mm4) | 09 Jan 2004
Mm4 Tight (updates Mouse Tight using mm4) | 08 Jan 2004
ECgene Genes | 22 Dec 2003
vsPt0/axtBest downloads (chimp reciprocal best) | 22 Dec 2003
Alt-Splicing | 18 Dec 2003
Twinscan Genes | 18 Dec 2003
Chimp All Chains, Chimp Net, Chimp sequence and chain downloads | 10 Dec 2003
BAC End Pairs (updated) | 19 Nov 2003
TIGR Gene Index | 18 Nov 2003
Ensembl Genes | 18 Nov 2003
Chain Self | 15 Nov 2003
UniGene_2, sage | 12 Nov 2003
Gene Bounds | 12 Nov 2003
Chain Self | 11 Nov 2003
Vega Genes, Vega Pseudogenes | 07 Nov 2003
NCI60 | 24 Oct 2003
Known Genes (add UTR 3' and 5' folding data) | 24 Oct 2003
Haplotype Blocks, Perlegen (chr 21 and 22 only) | 24 Oct 2003
Human/Mouse/Rat downloads | 24 Oct 2003
Mouse Synteny | 21 Oct 2003
Genbank daily updates enabled | 14 Oct 2003
Affy 120K SNPs | 13 Oct 2003
Random SNPs, Overlap SNPs (dbSnp 117) | 10 Oct 2003
Human/Mouse/Rat (using mm3 and rn3) | 09 Oct 2003
Known Genes (update) | 08 Oct 2003
Fugu Blat (v. 3.0) | 02 Oct 2003
affyRatio table | 29 Sep 2003
SGP Genes | 29 Sep 2003
Gene Sorter | 29 Sep 2003
vsMm3, vsRn3 data downloads | 29 Sep 2003
Twinscan | 18 Sep 2003
Geneid | 18 Sep 2003
Mouse Chain (using mm3) | 10 Sep 2003
Mouse Net (using mm3) (contains fixes to chr1 data) | 10 Sep 2003
Mouse Tight (using mm3) (contains fixes to chr1 data) | 10 Sep 2003
First EF (contains fixes to chrX and chrY) | 09 Sep 2003
Mouse Net (using mm3) | 02 Sep 2003
Rat Net (using rn3) | 02 Sep 2003
Rat Chain | 29 Aug 2003
Mouse Chain | 29 Aug 2003
Tight Mouse | 29 Aug 2003
Self Chain | 29 Aug 2003
Known Genes | 26 Aug 2003
STS Markers (updated) | 11 Aug 2003
Initial hg16 release (using NCBI Build 34): Chromosome Band, FISH Clones, Assembly, Gap, STS Markers, Map Contigs, Recomb Rate, GC Percent, Coverage, BAC End Pairs, Fosmid End Pairs, RefSeq Genes, MGC Genes, Genscan Genes, Human mRNAs, Spliced ESTs, Human ESTs, NonHuman mRNAs, NonHuman ESTs, CpG Islands, RepeatMasker, Simple Repeats. Downloads: bigZips, chromosomes, database | 08 Aug 2003
Chimp Oct. 2010 (CGSC 2.1.3/panTro3) (panTro3, CGSC 2.1.3 (GCA_000001515.3))
Track/Table Name | Release Date
Gorilla Chain/Net | 28 Nov 2011
Opossum Chain/Net | 07 Nov 2011
Multiz Alignment & Conservation (12 Species) | 22 Aug 2011
N-SCAN gene predictions | 20 Jun 2011
panTro3 to panTro2 liftOver | 15 Jun 2011
Dog (May 2005 (Broad/canFam2)), Chain and Net Alignments | 24 May 2011
Mouse (July 2007 (NCBI37/mm9)), Chain and Net Alignments | 20 May 2011
Marmoset (March 2009 (WUGSC 3.2/calJac3)), Chain and Net Alignments | 19 May 2011
Rhesus (Jan. 2006 (MGSC Merged 1.0/rheMac2)), Chain and Net Alignments | 19 May 2011
Horse (Sep. 2007 (Broad/equCab2)), Chain and Net Alignments | 29 Apr 2011
Orangutan (July 2007 (WUGSC 2.0.2/ponAbe2)), Chain and Net Alignments | 28 Apr 2011
Chicken (May 2006 (WUGSC 2.1/galGal3)), Chain and Net Alignments | 27 Apr 2011
Zebrafish (Jul. 2010 (Zv9/danRer7)), Chain and Net Alignments | 11 Mar 2011
Initial panTro3 release (using CGSC 2.1.3 (GCA_000001515.3)): Assembly, Scaffolds, Gap, GC Percent, Short Match, Restr Enzymes, PCR Results, RefSeq Genes, Other RefSeq, Chimp mRNAs, Spliced ESTs, Chimp ESTs, Other mRNAs, CpG Islands, Human Chain/Net, Repeat Masker, Interrupted Rpts, Simple Repeats. | 01 Mar 2011
Chimp Mar. 2006 (CGSC 2.1/panTro2) (panTro2, Washington University Build 2 Version 1)
Track/Table Name | Release Date
Ensembl Genes v64 | 07 Nov 2011
Ensembl gene update, version 63 | 30 Sep 2011
Ensembl gene update, version 62 | 12 May 2011
Ensembl gene update, version 61 | 10 Mar 2011
Denisova Sequence Reads | 30 Dec 2010
Ensembl gene update, version 59 | 23 Aug 2010
Ensembl gene update, version 58 | 21 Jun 2010
Marmoset Chain/Net | 03 Jun 2010
Neandertal Seq | 07 May 2010
Neandertal Cntgs | 07 May 2010
Remove special-case handling human mRNAs, ESTs and RefSeqs to treat them as native chimp transcripts. | 28 Apr 2010
Ensembl gene update, version 57 | 20 Apr 2010
TransMap Alignments update | 17 Dec 2009
Opossum Chain and Net | 20 Sep 2009
Ensembl gene update to version 55 | 13 Aug 2009
ENCODE NHGRI Elnitski Bi-directional Promoters | 30 Jul 2009
Primate chains and nets from/to human hg19 | 21 Jul 2009
quality score fasta files | 16 Jun 2009
Human Chain/Net/LiftOver (hg19) | 06 May 2009
Ensembl Genes v52 | 09 Feb 2009
Added alignments of non-coding RNAs (NR_*) to RefSeq and Xeno-RefSeq tracks. | 27 Oct 2008
Ensembl gene update (version 50) | 18 Aug 2008
TransMap | 17 Jul 2008
Marmoset Chain/Net/LiftOver (calJac1) | 24 Apr 2008
Ensembl genes, version 49 | 17 Apr 2008
Mouse (Jul. 2007/mm9) Chained Alignments Mouse (Jul. 2007/mm9) Alignment Net | 19 Oct 2007
N-SCAN chimp predictions using mouse (mm8) as the informant | 01 Aug 2006
Chicken (galGal2) Chains, Net and LiftOvers | 31 Jul 2006
Zebrafish (danRer4) Chains, Net and LiftOvers | 31 Jul 2006
Dog (canFam2) Chains, Net and LiftOvers | 26 Jul 2006
Genscan Genes | 21 Jul 2006
Initial panTro2 release (Build 2, Version 1, October 2005): Assembly; Gap; GC Percent; Quality Scores; RefSeq Genes; Non-Chimp/Human RefSeq Genes; Chimp/Human ESTs; Spliced ESTs; Chimp/Human mRNAs; Non-Chimp/Human mRNAs; CpG Islands; Chains & Nets: Rat, Mouse, Rhesus, Human; RepeatMasker; Simple Repeats. Downloads: bigZips, chromosomes, database, lift over files. | 20 Jul 2006
Chimp Nov. 2003 (CGSC 1.1/panTro1) (panTro1, CGSC Build 1 Version 1 Arachne assembly)
Track/Table Name | Release Date
Remove special-case handling human mRNAs, ESTs and RefSeqs to treat them as native chimp transcripts. | 28 Apr 2010
Added alignments of non-coding RNAs (NR_*) to RefSeq and Xeno-RefSeq tracks. | 27 Oct 2008
SNP Alignment Display | 01 Dec 2006
SNP build 125 | 29 Aug 2006
LiftOvers: fr1, tetNig1, xenTro1, galGal2, bosTau2, rheMac1, panTro1, hg17, rn3 -> mm7; fr1, tetNig1, xenTro1, galGal2, panTro1 -> mm6; galGal2 -> danRer2, mm5, hg17, monDom1, tetNig1, xenTro1; rheMac1 -> hg17; panTro1 -> hg16, hg17 | 03 Jan 2006
chain/net tracks to mm6 | 05 May 2005
Ensembl Genes | 22 Jun 2004
BAC End Pairs | 28 May 2004
Fugu Blat | 14 May 2004
Genscan Genes | 10 May 2004
Contigs | 28 Apr 2004
Twinscan | 27 Apr 2004
Human Deletions (updated) | 14 Apr 2004
Geneid Genes (chr1 updated) | 07 Apr 2004
Geneid Genes | 24 Mar 2004
Human Best, vsHg15 downloads | 02 Mar 2004
Initial panTro1 Release (using the Build 1 Version 1 Arachne assembly dated 13 Nov. 2003): Scaffolds, Gap, GC Percent, Quality Scores, Human RefSeq, Chimp mRNAs, Spliced ESTs, Chimp ESTs, NonChimp mRNAs, NonChimp ESTs, CpG Islands, Human Chain, Human Net, Human Deletions, RepeatMasker, Simple Repeats. Downloads: bigZips, chromosome, database. | 23 Feb 2004
Gorilla May 2011 (gorGor3.1/gorGor3) (gorGor3, Wellcome Trust Sanger Institute May 2011 (NCBI project 31265, GCA_000151905.1))
Track/Table Name | Release Date
Initial gorGor3 release (using Wellcome Trust Sanger Institute May 2011 (NCBI project 31265, GCA_000151905.1)): Assembly, Gap, GC Percent, RepeatMasker, Interrupted Repeats, Simple Repeats, Other RefSeq, Gorilla mRNAs, Other mRNAs, Ensembl Genes, Chimp Chain/Net, Gibbon Chain/Net, Human Chain/Net, Marmoset Chain/Net, Orangutan Chain/Net, Rhesus Chain/Net | 23 Nov 2011
Orangutan July 2007 (WUGSC 2.0.2/ponAbe2) (ponAbe2, WUSTL 3.0)
Track/Table Name | Release Date
Gorilla Chain/Net | 28 Nov 2011
Ensembl Genes v64 | 07 Nov 2011
Ensembl gene update, version 63 | 30 Sep 2011
Ensembl gene update, version 62 | 12 May 2011
Chimp (Oct. 2010 (CGSC 2.1.3/panTro3)), Chain and Net Alignments | 28 Apr 2011
Ensembl gene update, version 61 | 10 Mar 2011
Ensembl gene update, version 59 | 23 Aug 2010
Ensembl gene update, version 58 | 21 Jun 2010
Marmoset Chain/Net | 03 Jun 2010
Ensembl gene update, version 57 | 20 Apr 2010
TransMap Alignments update | 17 Dec 2009
Opossum Chain and Net | 22 Sep 2009
Ensembl gene update to version 55 | 13 Aug 2009
Primate chains and nets from/to human hg19 | 21 Jul 2009
Ensembl Genes v52 | 09 Feb 2009
Added alignments of non-coding RNAs (NR_*) to RefSeq and Xeno-RefSeq tracks. | 27 Oct 2008
automated rebuilding of transcription start upstream fasta and MAF files based on genbank or refseq tracks. | 16 Oct 2008
Ensembl gene update (version 50) | 19 Aug 2008
TransMap | 17 Jul 2008
Ensembl genes, version 49 | 02 May 2008
Marmoset Chain/Net/LiftOver (calJac1) | 24 Apr 2008
N-SCAN gene predictions | 17 Mar 2008
Initial ponAbe2 release (using WUSTL 3.0): Assembly, Gap, GC Percent, Quality Scores, Non-Orangutan RefSeq, Genscan Genes, mRNAs, Spliced ESTs, ESTs, Other mRNAs,Conservation, Most Conserved, RepeatMasker, Interrupted Rpts, Simple Repeats, Opossum Chain & Net, Platypus Chain & Net, Mouse Chain & Net, Rhesus Chain & Net, Chimp Chain & Net, Human Chain & Net | 11 Mar 2008
Gibbon Jan. 2010 (GGSC Nleu1.0/nomLeu1) (nomLeu1, GGSC (NCBI project 13975, accession GCA_000146795.1))
Track/Table Name | Release Date
Initial nomLeu1 release (using GGSC (NCBI project 13975, accession GCA_000146795.1)): Assembly, Gap, GC Percent, RepeatMasker, Interrupted Repeats, Simple Repeats, Other RefSeq, Gibbon mRNAs, Other mRNAs, Ensembl Genes, Gorilla Chain/Net, Human Chain/Net | 23 Nov 2011
Rhesus Jan. 2006 (MGSC Merged 1.0/rheMac2) (rheMac2, Venter Inst./Baylor/WashU Merged assembly Jan 2006 v1 edit4)
Track/Table Name | Release Date
Gorilla Chain/Net | 28 Nov 2011
Ensembl Genes v64 | 07 Nov 2011
Ensembl gene update, version 63 | 30 Sep 2011
Chimp (Oct. 2010 (CGSC 2.1.3/panTro3)), Chain and Net Alignments | 19 May 2011
Ensembl gene update, version 62 | 12 May 2011
Ensembl gene update, version 61 | 10 Mar 2011
RefSeq 1.2 genomic annotations from NCBI | 03 Dec 2010
Ensembl gene update, version 59 | 23 Aug 2010
Ensembl gene update, version 58 | 21 Jun 2010
Marmoset Chain/Net | 03 Jun 2010
Ensembl gene update, version 57 | 20 Apr 2010
TransMap Alignments update | 17 Dec 2009
Opossum Chain and Net | 23 Sep 2009
Ensembl gene update to version 55 | 13 Aug 2009
ENCODE NHGRI Elnitski Bi-directional Promoters | 30 Jul 2009
Primate chains and nets from/to human hg19 | 21 Jul 2009
Ensembl Genes v52 | 09 Feb 2009
Added alignments of non-coding RNAs (NR_*) to RefSeq and Xeno-RefSeq tracks. | 27 Oct 2008
Ensembl gene update (version 50) | 19 Aug 2008
TransMap | 17 Jul 2008
Marmoset Chain/Net/LiftOver (calJac1) | 24 Apr 2008
Ensembl genes, version 49 | 17 Apr 2008
SGP and Geneid tracks | 02 Jan 2008
Mouse (Jul. 2007/mm9) Chained Alignments Mouse (Jul. 2007/mm9) Alignment Net | 11 Sep 2007
Native RefSeqs | 13 Jun 2007
CpG Islands | 12 Sep 2006
N-SCAN gene prediction for Rhesus rheMac2 from Michael Brent's Computational Genomics Group at Washington University St. Louis | 11 Aug 2006
quality scores for rheMac2 | 20 Mar 2006
Contigs. Table update. Added missing records. | 16 Feb 2006
Initial rhesus macaque browser release (Macaca mulatta preliminary assembly, Baylor, rheMac2) Assembly, Gap, RepeatMasker, Simple Repeats, Other RefSeq, Other mRNAs, Spliced ESTs, Rhesus mRNAs, Rhesus ESTs | 13 Feb 2006
Marmoset March 2009 (WUGSC 3.2/calJac3) (calJac3, WUSTL 3.2 (GCA_000004665.1))
Track/Table Name | Release Date
Gorilla Chain/Net | 28 Nov 2011
Ensembl Genes v64 | 07 Nov 2011
Vertebrate Multiz Alignment & Conservation (13 Species) | 21 Oct 2011
Ensembl gene update, version 63 | 30 Sep 2011
Chimp (Oct. 2010 (CGSC 2.1.3/panTro3)), Chain and Net Alignments | 19 May 2011
Ensembl gene update, version 62 | 12 May 2011
Ensembl gene update, version 61 | 10 Mar 2011
Marmoset Quality Scores | 02 Nov 2010
Marmoset BAC Ends and BAC End Singletons | 29 Oct 2010
Ensembl gene update, version 59 | 23 Aug 2010
N-SCAN gene predictions from WUStL | 03 Jun 2010
Initial calJac3 release (using WUSTL 3.2 (GCA_000004665.1)): Assembly; Scaffolds; Gap; GC Percent; Short Match; Restr Enzymes; Other RefSeq; Marmoset mRNAs; Spliced ESTs; Marmoset ESTs; Non-Marmoset mRNAs; CpG Islands; Chain & Nets: Rhesus, Organgutan, Chimp, Human, Mouse, Dog, Opossum; Marmoset Repeat Masker; Interrupted Rpts; Simple Repeats. Downloads: bigZips, chromosomes, database, liftOvers, comparatives. | 03 Jun 2010
Marmoset June 2007 (WUGSC 2.0.2/calJac1) (calJac1, WUSTL 2.0.2)
Track/Table Name | Release Date
Marmoset Chain/Net | 03 Jun 2010
TransMap Alignments update | 17 Dec 2009
Primate chains and nets from/to human hg19 | 21 Jul 2009
quality score fasta files | 16 Jun 2009
Quality Scores | 26 Nov 2008
Added alignments of non-coding RNAs (NR_*) to RefSeq and Xeno-RefSeq tracks. | 27 Oct 2008
automated rebuilding of transcription start upstream fasta and MAF files based on genbank or refseq tracks. | 16 Oct 2008
TransMap | 17 Jul 2008
Initial calJac1 release (using WUSTL 2.0.2): Assembly, Gap, GC Percent, Other RefSeq, N-SCAN, Genscan Genes, Marmoset mRNAs, Spliced ESTs, Marmoset ESTs, Non-marmoset mRNAs, Conservation, Most Conserved, RepeatMasker, Simple Repeats, Net/Chains: Rhesus, Orangutan, Chimp, Human, Mouse, Dog, Opossum, Platypus. Downloads: bigZips, database, liftOvers, comparitaves, multiz, phastCons. | 24 Apr 2008
Mouse July 2007 (NCBI37/mm9) (mm9, NCBI Build 37)
Track/Table Name | Release Date
Histone Modifications by ChIP-seq by ChIP-seq from ENCODE/Caltech | 28 Nov 2011
Transcription Factor Binding Sites by ChIP-seq from ENCODE/Caltech | 23 Nov 2011
X. tropicalis Chain/Net | 15 Nov 2011
Turkey Chain/Net | 07 Nov 2011
Cow Chain/Net | 07 Nov 2011
Ensembl Genes v64 | 07 Nov 2011
Segmental Dups - Duplications of >1000 Bases of Non-RepeatMasked Sequence | 21 Oct 2011
Lizard Chain/Net | 04 Oct 2011
Ensembl gene update, version 63 | 30 Sep 2011
Transcription Factor Binding Sites by ChIP-seq from ENCODE/Stanford/Yale (Release 2) | 19 Sep 2011
IKMC Genes (update) | 09 Sep 2011
NumtS mitochondrial sequence | 05 Aug 2011
RNA-seq from ENCODE/LICR | 04 Aug 2011
Transcription Factor Binding Sites by ChIP-seq from ENCODE/LICR | 22 Jul 2011
Histone Modifications by ChIP-seq from ENCODE/Stanford/Yale | 22 Jul 2011
Genomic Evolutionary Rate Profiling (GERP) scores for mammalian alignments | 07 Jul 2011
DNaseI Hypersensitivity by Digital DNaseI from ENCODE/University of Washington | 01 Jul 2011
Histone Modifications by ChIP-seq from ENCODE/LICR | 24 Jun 2011
Data update for MGI annotations: MGI QTL, MGI Rep Transcript, MGI Phenotype, MGI Allele, MGI Gene Trap | 22 Jun 2011
NKI Nuclear Lamina Associated Domains (LaminB1 DamID) | 02 Jun 2011
Chimp (Oct. 2010 (CGSC 2.1.3/panTro3)), Chain and Net Alignments | 20 May 2011
Ensembl gene update, version 62 | 12 May 2011
Sheep Chain/Net | 19 Apr 2011
IKMC Genes (update) | 25 Mar 2011
NCBI Incident database | 10 Mar 2011
Ensembl gene update, version 61 | 10 Mar 2011
Zebrafish Chain/Net | 04 Mar 2011
Transcription Factor Binding Sites by ChIP-seq from ENCODE/Stanford/Yale | 07 Feb 2011
Agilent CGH | 04 Feb 2011
Segmental Dups | 26 Jan 2011
TS miRNA sites | 20 Dec 2010
PhyloP conservation tracks for 30-way alignment | 17 Nov 2010
MGI Gene Trap | 05 Nov 2010
Data update for MGI annotations: MGI QTL, MGI Rep Transcript, MGI Phenotype, MGI Allele | 05 Nov 2010
Ensembl gene update, version 59 | 23 Aug 2010
Cat Chain/Net | 17 Aug 2010
Ensembl gene update, version 58 | 21 Jun 2010
Marmoset Chain/Net | 03 Jun 2010
tRNA Genes | 18 May 2010
Pig Chain/Net | 12 May 2010
Mapability or Uniqueness of Reference Genome | 04 May 2010
Rabbit Chain/Net | 26 Apr 2010
Panda Chain/Net | 16 Apr 2010
IKMC Genes: database table name change | 13 Apr 2010
Elephant Chain and Net | 24 Mar 2010
IKMC Genes: data update | 16 Mar 2010
Tetraodon Chain/Net and liftOver file | 12 Mar 2010
Zebrafish Chain/Net composite tracks | 08 Mar 2010
NIA Gene Index | 23 Feb 2010
IKMC Genes: data update | 13 Jan 2010
TransMap Alignments update | 17 Dec 2009
Added link to The GeneNetwork from the UCSC Genes details page. | 02 Dec 2009
Chain and Net for Horse/equCab2 on Dog and Mouse | 03 Nov 2009
rn4 <--> mm9 Chains & Nets and LiftOvers (update) | 30 Oct 2009
Opossum Chain and Net | 24 Sep 2009
IKMC Genes: data update | 23 Sep 2009
Repressor Element 1-Silencing Transcription Factor (REST) binding sites | 21 Sep 2009
Data update for MGI annotations: MGI QTL, MGI Rep Transcript, MGI Phenotype, MGI Allele | 18 Sep 2009
Chains and Nets for non-primate mammal species vs Human | 16 Sep 2009
Vega Genes (build 35 update) | 09 Sep 2009
Ensembl gene update to version 55 | 11 Aug 2009
ENCODE NHGRI Elnitski Bi-directional Promoters | 30 Jul 2009
Gene Trap (data update 07-01-2009) | 21 Jul 2009
Data update for MGI annotations: MGI QTL, MGI Rep Transcript, MGI Phenotype, MGI Allele | 07 Jul 2009
Gene Trap (data update 06-01-2009) | 15 Jun 2009
IKMC Genes: data update | 10 Jun 2009
Gene Trap (data update 05-01-2009) | 20 May 2009
Human Proteins | 14 Apr 2009
affyExonTissues (initial release) | 16 Mar 2009
Gene Trap (data update 03-01-2009) | 12 Mar 2009
Ensembl Genes v52 | 18 Feb 2009
agilentProbes update (formerly agilentCgh) | 23 Jan 2009
Gene Trap (data update 01-01-2009) | 21 Jan 2009
Data update for MGI annotations: MGI QTL, MGI Rep Transcript, MGI Phenotype, MGI Allele | 15 Dec 2008
Gene Trap (data update 12-01-2008) | 08 Dec 2008
Enable isPCR on UCSC Gene set to amplify exons only. | 26 Nov 2008
Medaka Chain and Net | 19 Nov 2008
Gene Trap (data update 11-01-2008) | 05 Nov 2008
Added alignments of non-coding RNAs (NR_*) to RefSeq and Xeno-RefSeq tracks. | 27 Oct 2008
KOMP Genes | 24 Oct 2008
automated rebuilding of transcription start upstream fasta and MAF files based on genbank or refseq tracks. | 16 Oct 2008
Gene Trap (data update 10-01-2008) | 13 Oct 2008
ORegAnno track update | 07 Oct 2008
Converted MGC track to PSL (to allow for alignment visualization) | 22 Sep 2008
Gene Trap (data update 09-01-2008) | 04 Sep 2008
Ensembl gene update (version 50) | 22 Aug 2008
Gene Trap (data update 08-01-2008) | 11 Aug 2008
MGI annotations on NCBI Build 37 (mm9): MGI QTL, MGI Rep Transcript, MGI Phenotype, MGI Allele | 29 Jul 2008
TransMap | 17 Jul 2008
Gene Trap (data update 07-01-2008) | 09 Jul 2008
Gene Trap (data update 06-01-2008) | 13 Jun 2008
Guinea Pig Chain and Net | 11 Jun 2008
Lamprey Chain/Net/LiftOver (petMar1) | 10 Jun 2008
Lancelet Chain/Net/LiftOver (braFlo1) | 10 Jun 2008
MicroRNAs from miRBase (track update) | 05 Jun 2008
Vega Genes - Vega Annotations, Vega Annotated Pseudogenes and Immunoglobulin Segments | 04 Jun 2008
Update of CCDS annotations | 04 Jun 2008
TROMER Transcriptome database, SIB Alt-Splicing | 29 May 2008
Gene Trap (data update 05-01-2008) | 07 May 2008
Marmoset Chain/Net/LiftOver (calJac1) | 24 Apr 2008
Ensembl genes, version 49 | 17 Apr 2008
Gene Trap (data update 04-01-2008) | 10 Apr 2008
Chain track, Net track, and liftOver file to bosTau4 | 08 Apr 2008
Gene Trap (data update 03-01-2008) | 06 Mar 2008
Gene Trap (data update 02-01-2008) | 14 Feb 2008
Updated with CCDS genes (as of 2008-02-01) | 12 Feb 2008
Gene Trap (data update 01-01-2008) | 11 Jan 2008
Adding BAC End: RP23-473N24 | 09 Jan 2008
CCDS update (as of 2007-12-12) | 14 Dec 2007
Gene Trap (data update 12-01-2007) | 04 Dec 2007
Conservation (30-vertebrate alignment) | 30 Nov 2007
Gene Trap (data update 11-01-2007) | 16 Nov 2007
X. tropicalis (Aug. 2005/xenTro2) Chained Alignments X. tropicalis (Aug. 2005/xenTro2) Alignment Net | 05 Nov 2007
CpG Islands | 25 Oct 2007
N-SCAN gene predictions from WUStL | 25 Oct 2007
Micro-RNAs | 19 Oct 2007
Platypus (Mar. 2007/ornAna1) Chained Alignments Platypus (Mar. 2007/ornAna1) Alignment Net | 19 Oct 2007
Chimp (Mar 2006/panTro2) Chained Alignments Chimp (Mar 2006/panTro2) Alignment Net | 19 Oct 2007
Chicken (May 2006/galGal3) Chained Alignments Chicken (May 2006/galGal3) Alignment Net | 19 Oct 2007
Cow (Aug. 2006/bosTau3) Chained Alignments Cow (Aug. 2006/bosTau3) Alignment Net | 16 Oct 2007
Horse (Jan. 2007/equCab1) Chained Alignments Horse (Jan. 2007/equCab1) Alignment Net | 16 Oct 2007
Lizard (Feb. 2007/anoCar1) Chained Alignments Lizard (Feb. 2007/anoCar1) Alignment Net | 16 Oct 2007
SGP Gene Predictions Using Mouse/Human Homology | 15 Oct 2007
Geneid Gene Predictions | 12 Oct 2007
Gene Trap (data update 10-01-2007) | 12 Oct 2007
UCSC Genes | 12 Oct 2007
Opossum (Jan 2006/monDom4) Chained Alignments Opossum (Jan 2006/monDom4) Alignment Net | 04 Oct 2007
AceView Genes | 19 Sep 2007
Fugu (Oct. 2004/fr2) Chained Alignments Fugu (Oct. 2004/fr2) Chained Alignments | 14 Sep 2007
Stickleback (Feb. 2006/gasAcu1) Chained Alignments Stickleback (Feb. 2006/gasAcu1) Chained Alignments | 12 Sep 2007
Rhesus (Jan. 2006/rheMac2) Chained Alignments Rhesus (Jan. 2006/rheMac2) Alignment Net | 11 Sep 2007
Tetraodon (Feb. 2004/tetNig1) Alignment Net Tetraodon (Feb. 2004/tetNig1) Chained Alignments | 10 Sep 2007
Dog (May 2005/canFam2) Chained Alignments Dog (May 2005/canFam2) Alignment Net | 07 Sep 2007
Medaka (Apr. 2006/oryLat1) Chained Alignments Medaka (Apr. 2006/oryLat1) Alignment Net | 06 Sep 2007
Rat (rn4) Chain and Net tracks and liftOver file | 28 Aug 2007
Human (hg18) Chain and Net tracks and liftOver file | 28 Aug 2007
Initial mm9 release (using NCBI Build 37): Chromosome Band; STS Markers; Map Contigs; Assembly; Gap; BAC End Pairs; GC Percent; RefSeq Genes; Other RefSeq; MGC Genes; Genscan Gene;Mouse mRNAs; Spliced ESTs; Mouse ESTs; Non Mouse mRNAs; RepeatMasker; Simple Repeats; Microsatellite; Downloads: bigZips, chromosomes, database. | 22 Aug 2007
Mouse Feb. 2006 (NCBI36/mm8) (mm8, NCBI Build 36)
Track/Table Name | Release Date
Gene Trap (data update 07-01-2009) | 21 Jul 2009
Gene Trap (data update 06-01-2009) | 15 Jun 2009
Gene Trap (data update 05-01-2009) | 20 May 2009
affyExonTissues (initial release) | 16 Mar 2009
Gene Trap (data update 03-01-2009) | 12 Mar 2009
Gene Trap (data update 01-01-2009) | 21 Jan 2009
Gene Trap (data update 12-01-2008) | 08 Dec 2008
Enable isPCR on UCSC Gene set to amplify exons only. | 26 Nov 2008
Gene Trap (data update 11-01-2008) | 05 Nov 2008
Added alignments of non-coding RNAs (NR_*) to RefSeq and Xeno-RefSeq tracks. | 27 Oct 2008
automated rebuilding of transcription start upstream fasta and MAF files based on genbank or refseq tracks. | 16 Oct 2008
Gene Trap (data update 10-01-2008) | 13 Oct 2008
Broad H3 ChIPseq (Initial submission of mouse chromatin mapping tracks) | 23 Sep 2008
Converted MGC track to PSL (to allow for alignment visualization) | 22 Sep 2008
Gene Trap (data update 09-01-2008) | 04 Sep 2008
Gene Trap (data update 08-01-2008) | 11 Aug 2008
Gene Trap (data update 07-01-2008) | 09 Jul 2008
Gene Trap (data update 06-01-2008) | 13 Jun 2008
Agilent Catalog Oligonucleotide CGH Microarray probesets | 04 Jun 2008
Update of CCDS annotations | 04 Jun 2008
Gene Trap (data update 05-01-2008) | 07 May 2008
Gene Trap (data update 04-01-2008) | 10 Apr 2008
Gene Trap (data update 03-01-2008) | 06 Mar 2008
Gene Trap (data update 02-01-2008) | 14 Feb 2008
Updated with CCDS genes (as of 2008-02-01) | 12 Feb 2008
Gene Trap (data update 01-01-2008) | 11 Jan 2008
CCDS update (as of 2007-12-12) | 14 Dec 2007
Gene Trap (data update 12-01-2007) | 04 Dec 2007
Gene Trap (data update 11-01-2007) | 16 Nov 2007
Affymetrix Mouse Exon array version 1.0 probes and transcripts | 18 Oct 2007
Added CONTRAST gene predictions | 17 Oct 2007
Gene Trap (data update 10-01-2007) | 12 Oct 2007
Swiss Institute of Bioinformatics, SIB Genes initial release | 25 Sep 2007
Swiss Institute of Bioinformatics Alt-Splicing initial release. | 25 Sep 2007
WSSD Coverage | 20 Sep 2007
Gene Trap (data update 09-01-2007) | 12 Sep 2007
Updated Drosophila column in Gene Sorter from dm2 to dm3 FlyBase genes | 28 Aug 2007
Gene Trap (data update 08-01-2007) | 03 Aug 2007
Data update and added phenotype-allele relationships. | 01 Aug 2007
Jackson Lab/MGI QTL | 01 Aug 2007
removed "e-rows" from the upstream MAF files | 09 Jul 2007
Gene Trap (data update 07-01-2007) | 09 Jul 2007
Gene Trap (data update 06-01-2007) | 15 Jun 2007
CGAP SAGE | 15 Jun 2007
miRNA (data update) | 01 Jun 2007
Gene Trap (data update 05-01-2007) | 07 May 2007
Update of dmBlastTab tables (to dm2) to coincide with Fly Base v4.3 Genes | 20 Apr 2007
Gene Trap (data update 04-01-2007) | 19 Apr 2007
Updated annotated maf's to include gap information from other species | 12 Apr 2007
Update of hgBlastTab tables (to hg18) to coincide with UCSC Genes | 06 Apr 2007
Gene Trap (data update 3-1-2007) | 14 Mar 2007
Allen Brain Atlas Probes | 07 Mar 2007
synteny-filter update for xxBlastTab for HMR (hg18, hg17, mm8, mm7, rn4) | 27 Feb 2007
Added NCBI Clone Validation information to details of MGC genes | 12 Jan 2007
miRNA data update | 12 Dec 2006
SNP Alignment Display | 01 Dec 2006
Jackson Lab/MGI Representative Transcript, Phenotype and Allele data | 20 Nov 2006
Updated STS Markers on Genetic and Radiation Hybrid Maps to correct map distances | 03 Nov 2006
SGP Gene Predictions | 18 Oct 2006
Geneid Genes | 17 Oct 2006
NIA Mouse Gene Index | 15 Oct 2006
Consensus CDS (CCDS) | 10 Oct 2006
Update to UCSC Known Genes color coding scheme | 03 Oct 2006
MicroRNAs from miRBase | 07 Sep 2006
N-SCAN gene predictions from WUStL | 31 Aug 2006
SNP build 126 | 14 Aug 2006
Microsatellite Track: Di-nucleotide and Tri-nucleotide Repeats | 01 Aug 2006
gene prediction peptide tables | 24 Jul 2006
Rat Ortholog column of Gene Sorter and Known Gene details updated to rn4 | 20 Jul 2006
Ensembl Gene Predictions | 10 Jul 2006
regPotential7X data download files for hg18, hg17, mm8, mm7 | 26 Jun 2006
ESPERR Regulatory Potential (7 species) | 22 Jun 2006
Gene Trap | 19 Jun 2006
Physical Map Contigs | 16 Jun 2006
Updated frame annotation for Conservation track to fix error with spliced codons | 15 Jun 2006
chains and nets to Zebrafish (danRer4) | 31 May 2006
affy U74 | 22 May 2006
affy MOE430 | 22 May 2006
affy GNF1m | 22 May 2006
Initial mm8 release (using NCBI Build 36): Chromosome Band; STS Markers; Assembly; Gap; BAC End Pairs; GC Percent; Known Genes; Proteome Browser; RefSeq Genes; MGC Genes; Genscan Gene;Mouse mRNAs; Spliced ESTs; Mouse ESTs; NonMouse mRNAs; Allen Brain; Rinn Sex Exp; GNF U74A, GNF U74B, GNF U74C, CpG Islands; Conservation; Most Conserved; Chains & Nets: Fugu, Tetraodon, Zebrafish, X. tropicalis, Chicken, Cow, Dog, Rhesus, Chimp, Human; RepeatMasker; Simple Repeats. Downloads: bigZips, chromosomes, database, liftOvers, multiz17way, phastCons17Scores | 10 May 2006
Mouse Aug. 2005 (NCBI35/mm7) (mm7, NCBI Build 35)
Track/Table Name | Release Date
Gene Trap (data update 07-01-2009) | 21 Jul 2009
Gene Trap (data update 06-01-2009) | 15 Jun 2009
Gene Trap (data update 05-01-2009) | 20 May 2009
Gene Trap (data update 03-01-2009) | 12 Mar 2009
Gene Trap (data update 01-01-2009) | 21 Jan 2009
Gene Trap (data update 12-01-2008) | 08 Dec 2008
Gene Trap (data update 11-01-2008) | 05 Nov 2008
Added alignments of non-coding RNAs (NR_*) to RefSeq and Xeno-RefSeq tracks. | 27 Oct 2008
Gene Trap (data update 10-01-2008) | 13 Oct 2008
Converted MGC track to PSL (to allow for alignment visualization) | 22 Sep 2008
Gene Trap (data update 09-01-2008) | 04 Sep 2008
Gene Trap (data update 08-01-2008) | 11 Aug 2008
Gene Trap (data update 07-01-2008) | 09 Jul 2008
Gene Trap (data update 06-01-2008) | 13 Jun 2008
Gene Trap (data update 05-01-2008) | 07 May 2008
Gene Trap (data update 04-01-2008) | 10 Apr 2008
Gene Trap (data update 03-01-2008) | 06 Mar 2008
Gene Trap (data update 02-01-2008) | 14 Feb 2008
Gene Trap (data update 01-01-2008) | 11 Jan 2008
Gene Trap (data update 12-01-2007) | 04 Dec 2007
Gene Trap (data update 11-01-2007) | 16 Nov 2007
Gene Trap (data update 10-01-2007) | 12 Oct 2007
Gene Trap (data update 09-01-2007) | 12 Sep 2007
Gene Trap (data update 08-01-2007) | 03 Aug 2007
Gene Trap (data update 07-01-2007) | 09 Jul 2007
Gene Trap (data update 06-01-2007) | 15 Jun 2007
Gene Trap (data update 05-01-2007) | 07 May 2007
Gene Trap (data update 04-01-2007) | 19 Apr 2007
Gene Trap (data update 3-1-2007) | 14 Mar 2007
Allen Brain Atlas Probes | 07 Mar 2007
synteny-filter update for xxBlastTab for HMR (hg18, hg17, mm8, mm7, rn4) | 27 Feb 2007
Added NCBI Clone Validation information to details of MGC genes | 12 Jan 2007
Update to UCSC Known Genes color coding scheme | 03 Oct 2006
Microsatellite Track: Di-nucleotide and Tri-nucleotide Repeats | 01 Aug 2006
regPotential7X data download files for hg18, hg17, mm8, mm7 | 26 Jun 2006
ESPERR Regulatory Potential (7 species) | 22 Jun 2006
Gene Trap | 19 Jun 2006
MicroRNA target sites in 3' UTRs as predicted by PicTar | 24 May 2006
sgpGene | 24 May 2006
VisiGene (Allen Brain Atlas) | 17 Mar 2006
Zebrafish Chain/Net/LiftOver (danRer3) | 21 Feb 2006
Link to Gene Network Id from Known Gene details page | 16 Feb 2006
Improved searching capability for VisiGene | 16 Feb 2006
Improved searching capability for Known Genes | 03 Feb 2006
Geneid gene predictions from IMIM at GRIB | 31 Dec 2005
Allen Brain Atlas Images | 30 Dec 2005
LiftOvers: mm7 -> fr1/tetNig1/xenTro1/galGal2/bosTau2/rheMac1/panTro1/hg17/rn3 | 22 Dec 2005
Dog Chain/Net/LiftOver (canFam2) | 22 Dec 2005
Mouse liftOvers: mm3, mm4, mm5, mm6 -> mm7; mm5-> galGal2; mm6 -> galGal2, monDom1, xenTro1, canFam2, hg16, panTro1, danRer2, fr1, tetNig1 | 21 Dec 2005
Initial mm7 Release (using NCBI build 35): Chromosome Band; STS Markers; Map Contigs; Gap; BAC End Pairs; GC Percent; Short Match; Restriction Enzymes; CpG Islands; Known Genes; MGC Genes; RefSeq Genes; Other RefSeq; Genscan Genes; ESTs; miRNAs; mRNAs; Non-Mouse mRNAs; Repeat Masker; Simple Repeats; Riken CAGE; Riken CAGE Tc; Allen Brain Atlas; Rinn Sex Expression; GNF Expression; Conservation; Most Conserved; Chains/Nets: Fugu, Tetraodon, X. tropicalis, Chicken, Cow, Rhesus, Chimp, Human, Rat; Gene Sorter; Proteome Browser. Downloads: bigZips, chromosomes, database, comparatives. | 15 Dec 2005
Rat Nov. 2004 (Baylor 3.4/rn4) (rn4, Baylor HGSC v. 3.4)
Track/Table Name | Release Date
X. tropicalis Chain/Net | 15 Nov 2011
Turkey Chain/Net | 07 Nov 2011
Cow Chain/Net | 07 Nov 2011
Ensembl Genes v64 | 07 Nov 2011
Ensembl gene update, version 63 | 30 Sep 2011
Ensembl gene update, version 62 | 12 May 2011
Ensembl gene update, version 61 | 10 Mar 2011
Agilent CGH | 04 Feb 2011
Ensembl gene update, version 59 | 23 Aug 2010
BlastTab tables rebuild | 23 Aug 2010
Ensembl gene update, version 58 | 21 Jun 2010
tRNA Genes | 18 May 2010
Panda Chain/Net | 16 Apr 2010
TransMap Alignments update | 17 Dec 2009
Added link to The GeneNetwork from the UCSC Genes details page. | 02 Dec 2009
Gene Sorter and UCSC Genes otherOrgs links to yeast sacCer2 | 02 Nov 2009
Ensembl gene update to version 56 | 30 Oct 2009
rn4 <--> mm9 Chains & Nets and LiftOvers (update) | 30 Oct 2009
Chains and Nets for non-primate mammal species vs Human | 16 Sep 2009
Ensembl gene update to version 55 | 11 Aug 2009
ENCODE NHGRI Elnitski Bi-directional Promoters | 30 Jul 2009
quality score fasta files | 16 Jun 2009
affyExonTissues (initial release) | 16 Mar 2009
Ensembl Genes v52 | 18 Feb 2009
agilentProbes update (formerly agilentCgh) | 23 Jan 2009
Added alignments of non-coding RNAs (NR_*) to RefSeq and Xeno-RefSeq tracks. | 27 Oct 2008
automated rebuilding of transcription start upstream fasta and MAF files based on genbank or refseq tracks. | 16 Oct 2008
Converted MGC track to PSL (to allow for alignment visualization) | 22 Sep 2008
Ensembl gene update (version 50) | 22 Aug 2008
TransMap | 17 Jul 2008
Guinea Pig Chain and Net | 11 Jun 2008
Agilent Catalog Oligonucleotide CGH Microarray probesets | 04 Jun 2008
Ensembl v49 gene predictions | 15 Apr 2008
SGP and Geneid tracks | 02 Jan 2008
Updated mouse column in Gene Sorter and in Orthologous Genes section of gene details pages to mm9 UCSC Genes | 19 Oct 2007
Affymetrix Rat Exon array version 1.0 probes and transcripts | 18 Oct 2007
Added CONTRAST gene predictions | 17 Oct 2007
Rat Quantitative Trait Locus from RGD (data correction) | 03 Oct 2007
Quantitative Trait Locus from RGD (data update) | 25 Sep 2007
Mouse (mm9) Chain and Net tracks and liftOver file | 28 Aug 2007
Updated Drosophila column in Gene Sorter from dm2 to dm3 FlyBase genes | 28 Aug 2007
removed "e-rows" from the upstream MAF files | 09 Jul 2007
Update of dmBlastTab tables (to dm2) to coincide with Fly Base v4.3 Genes | 20 Apr 2007
Update of hgBlastTab tables (to hg18) to coincide with UCSC Genes | 06 Apr 2007
synteny-filter update for xxBlastTab for HMR (hg18, hg17, mm8, mm7, rn4) | 27 Feb 2007
Lift Over File from rn4 to rn3 | 12 Feb 2007
Added NCBI Clone Validation information to details of MGC genes | 12 Jan 2007
SNP Alignment Display | 01 Dec 2006
SNPs | 23 Oct 2006
Update to UCSC Known Genes color coding scheme | 03 Oct 2006
N-SCAN gene predictions from WUStL, using human as informant. | 03 Oct 2006
Microsatellite Track: Di-nucleotide and Tri-nucleotide Repeats | 01 Aug 2006
gene prediction peptide tables | 24 Jul 2006
Superfamily track, Gene Sorter column | 28 Jun 2006
Proteome Browser release | 28 Jun 2006
Zebrafish (danRer4) Chain/Net/liftOver | 21 Jun 2006
Initial rn4 release (using Baylor HGSC v3.4): Chromosome Band; RGD QTL; STS Markers; Assembly; Gap; BAC End Pairs; GC Percent; Short Match; Restr Enzymes; Known Genes; Rat and NonRat RefSeq Genes; MGC Genes; Ensembl Genes; Genscan Genes; miRNA, Rat mRNAs; Spliced ESTs; Rat ESTs; NonRat mRNAs; GNF Atlas 2; Affy RG-U34A; Affy RAE230; CpG Islands; CpG Islands (AL); Conservation; Most Conserved; Chains & Nets: X. tropicalis, Chicken, Cow, Dog, Human, Rhesus, Mouse; RepeatMasker; Simple Repeats. Downloads: bigZips, chromosomes, database, liftOvers, comparatives. | 20 Jun 2006
Rat June 2003 (Baylor 3.1/rn3) (rn3, Baylor HGSC v. 3.1)
Track/Table Name | Release Date
Added alignments of non-coding RNAs (NR_*) to RefSeq and Xeno-RefSeq tracks. | 27 Oct 2008
Converted MGC track to PSL (to allow for alignment visualization) | 22 Sep 2008
Added NCBI Clone Validation information to details of MGC genes | 12 Jan 2007
Update to UCSC Known Genes color coding scheme | 03 Oct 2006
Replaced twinscan track with N-SCAN (with hg17 informant) | 09 Jun 2006
Improved searching capability for Known Genes | 03 Feb 2006
Keyword search by NCBI contig accession ID added. | 13 Jan 2006
Updated rn3 -> mm6 liftOver (Downloads, Batch Coordinate Conversion utility) | 06 Jan 2006
LiftOvers: fr1, tetNig1, xenTro1, galGal2, bosTau2, rheMac1, panTro1, hg17, rn3 -> mm7; fr1, tetNig1, xenTro1, galGal2, panTro1 -> mm6; galGal2 -> danRer2, mm5, hg17, monDom1, tetNig1, xenTro1; rheMac1 -> hg17; panTro1 -> hg16, hg17 | 03 Jan 2006
Dog Chain/Net/LiftOver (canFam2) | 22 Dec 2005
link in KG details page to GeneNetwork | 14 Sep 2005
rn3ToMm5 and mm5ToRn3 liftOver (Downloads, Batch Coordinate Conversion utility) | 05 Jul 2005
rn3ToMm6 liftOver (Downloads and browser Batch Coordinate Conversion utility) | 06 Jun 2005
rn3ToHg17 liftOver (Downloads and browser Batch Coordinate Conversion utility) | 01 Jun 2005
Restriction Enzyme mapping (REbase release 505). | 24 May 2005
Non-Rat Refseq | 18 May 2005
chain/net tracks to mm6 | 05 May 2005
TIGR Gene Index | 10 Jan 2005
vsHg17 and vsMm5 pairwise alignments | 01 Dec 2004
Cytoband Ideo | 30 Nov 2004
MGC Genes | 24 Nov 2004
ECgene track update, EST clustering gene predictions | 22 Nov 2004
Assembly/gold track update to fix fragStart off by 1 | 19 Oct 2004
Mouse Chain and Net (update to mm5) | 13 Sep 2004
Human Chain, Human Net (update hg15 --> hg17) | 30 Aug 2004
Rat/Mouse/Human (updated) | 20 Aug 2004
Gene Sorter for rn3 | 24 Jun 2004
RGD SSLP | 01 Jun 2004
RGD ESTs | 28 May 2004
RGD Genes | 28 May 2004
RGD QTL | 28 May 2004
GNF Atlas 2 | 27 May 2004
Affymetrix RG-U34A | 24 May 2004
TIGR Gene Index | 21 May 2004
GC Percent (updated to 5-base window track) | 19 May 2004
Proteome Browser | 07 May 2004
Superfamily | 06 May 2004
Fugu Ecores | 05 May 2004
Tetraodon Ecores | 05 May 2004
miRNA (updated) | 05 May 2004
Superfamily | 05 May 2004
miRNA (updated) | 05 May 2004
Geneid | 05 May 2004
Fugu Ecores, Tetraodon Ecores | 05 May 2004
Ensembl Genes | 03 May 2004
Affymetrix RAE230 | 15 Apr 2004
Known Genes (updated) | 02 Apr 2004
Overlap SNPs (dbSnp 118) | 25 Feb 2004
Chromosome Band | 23 Dec 2003
ECgene Genes | 22 Dec 2003
TIGR Gene Index | 18 Nov 2003
Genbank daily updates enabled | 14 Oct 2003
Mouse Chain, Mouse Net (using mm3) | 18 Sep 2003
Known Genes (extended) | 18 Sep 2003
Rat/Mouse/Human (using mm3 and hg16) | 05 Sep 2003
Human Chain, Human Net (using hg16) | 04 Sep 2003
Human Tight (using hg16) | 03 Sep 2003
SGP Genes | 05 Aug 2003
Known Genes | 30 Jul 2003
Fgenesh++ Genes | 18 Jul 2003
Initial rn3 Release (using Baylor HGSC v. 3.1): Assembly, Gap, Bactigs, GC Percent, Bac End Pairs, RefSeq Genes, STS Markers, Geneid Genes, Genscan Genes, Rat mRNAs, Spliced ESTs, Rat ESTs, NonRat mRNAs, NonRat ESTs, CpG Islands, RepeatMasker, Simple Repeats, bigZips downloads, chromosome downloads | 14 Jul 2003
Twinscan (using hg15) | 14 Jul 2003
Guinea pig Feb. 2008 (Broad/cavPor3) (cavPor3, Broad Institute cavPor3)
Track/Table Name | Release Date
Ensembl Genes v64 | 07 Nov 2011
Ensembl gene update, version 63 | 30 Sep 2011
Ensembl gene update, version 62 | 12 May 2011
Ensembl gene update, version 61 | 10 Mar 2011
Ensembl gene update, version 59 | 23 Aug 2010
Added Guinea pig native RefSeq mRNA alignments | 22 Jun 2010
Ensembl gene update, version 58 | 21 Jun 2010
Rabbit Chain/Net | 26 Apr 2010
Ensembl gene update, version 57 | 20 Apr 2010
TransMap Alignments update | 17 Dec 2009
Ensembl gene update to version 55 | 13 Aug 2009
quality score fasta files | 16 Jun 2009
Ensembl Genes v52 | 02 Feb 2009
Added alignments of non-coding RNAs (NR_*) to RefSeq and Xeno-RefSeq tracks. | 27 Oct 2008
automated rebuilding of transcription start upstream fasta and MAF files based on genbank or refseq tracks. | 16 Oct 2008
TransMap | 17 Jul 2008
Initial cavPor3 release (using Broad Institute cavPor3) | 11 Jun 2008
Rabbit Apr. 2009 (Broad/oryCun2) (oryCun2, Broad Institute oryCun2 (NCBI project 12819, AAGW00000000))
Track/Table Name | Release Date
Ensembl Genes v64 | 07 Nov 2011
Ensembl gene update, version 63 | 30 Sep 2011
Ensembl gene update, version 62 | 12 May 2011
Ensembl gene update, version 61 | 10 Mar 2011
Ensembl gene update, version 59 | 23 Aug 2010
Ensembl gene update, version 58 | 21 Jun 2010
Human Proteins for Rabbit | 29 Apr 2010
Initial oryCun2 release (using Broad Institute oryCun2 (NCBI project 12819, AAGW00000000)): Scaffolds, Assembly, Gap, GC Percent, Quality Scores, RefSeq Genes, Other RefSeq, Rabbit mRNAs, Spliced ESTs, Rabbit ESTs, Other mRNAs, TransMap UCSC, TransMap RefGene, TransMap mRNA, TransMap ESTs, Ensembl Genes, RepeatMasker, Interrupted Rpts, Simple Repeats, Opossum Chain and Net, Mouse Chain and Net, Human Chain and Net, Guinea pig Chain and Net. Downloads: bigZips, chromosomes, database | 26 Apr 2010
Cat Dec. 2008 (NHGRI/GTB V17e/felCat4) (felCat4, NHGRI/Genome Technology Branch (NCBI project 10703, accession ACBE0100000))
Track/Table Name | Release Date
N-SCAN gene predictions from WUStL | 05 Nov 2010
Initial felCat4 release (using NHGRI/Genome Technology Branch (NCBI project 10703, accession ACBE0100000)): Assembly, Scaffolds, Gap, GC Percent, Short Match, Restr Enzymes, RefSeq Genes, Other RefSeq, Cat mRNAs, Spliced ESTs, Cat ESTs, Other mRNAs, CpG Islands, Opossum Chain/Net, Dog Chain/Net, Mouse Chain/Net, Panda Chain/Net, Human Chain/Net, RepeatMasker, Interrupted Rpts, Simple Repeats. Downloads: bigZips, chromosomes, database. | 18 Aug 2010
Cat Mar. 2006 (Broad/felCat3) (felCat3, Broad Release 3)
Track/Table Name | Release Date
Ensembl Genes v64 | 07 Nov 2011
Ensembl gene update, version 63 | 30 Sep 2011
Ensembl gene update, version 62 | 12 May 2011
Ensembl gene update, version 61 | 10 Mar 2011
Ensembl gene update, version 59 | 23 Aug 2010
Ensembl gene update, version 58 | 21 Jun 2010
TransMap Alignments update | 17 Dec 2009
Chains and Nets for non-primate mammal species vs Human | 16 Sep 2009
Ensembl gene update to version 55 | 07 Aug 2009
quality score fasta files | 16 Jun 2009
Ensembl Genes v52 | 28 Jan 2009
Added alignments of non-coding RNAs (NR_*) to RefSeq and Xeno-RefSeq tracks. | 27 Oct 2008
Ensembl gene update (version 50) and Ensembl Gene Scaffolds track update | 18 Aug 2008
TransMap | 17 Jul 2008
Ensembl genes, version 49; Ensembl Gene Scaffold | 18 Apr 2008
SGP and Geneid tracks | 02 Jan 2008
Most Conserved | 20 Jun 2007
Conservation (cat, dog, mouse, human) | 20 Jun 2007
N-SCAN gene predictions | 13 Mar 2007
Human Proteins | 23 Feb 2007
Geneid Gene Predictions | 16 Feb 2007
Initial felCat3 release (using Broad Release 3): Assembly; Gap; GC Percent; Quality Scores; Short Match; Restr Enzymes; RefSeq Genes; Other RefSeq; Genscan Genes; Cat mRNAs; Spliced ESTs; Cat ESTs; Other mRNAs; Cpg Islands; Chains & Nets: Human, Mouse, Dog; RepeatMasker; Simple Repeats; Microsatellite. Downloads: bigZips, database, liftOvers, comparatives. | 22 Jan 2007
Panda Dec. 2009 (BGI-Shenzhen 1.0/ailMel1) (ailMel1, BGI-Shenzhen AilMel 1.0 Dec. 2009)
Track/Table Name | Release Date
Ensembl Genes v64 | 07 Nov 2011
Ensembl gene update, version 63 | 30 Sep 2011
Ensembl gene update, version 62 | 12 May 2011
Ensembl gene update, version 61 | 10 Mar 2011
Cat Chain/Net | 17 Aug 2010
Initial ailMel1 release (using BGI-Shenzhen AilMel 1.0 Dec. 2009): Assembly, Gap, GC Percent, Other RefSeq, Panda mRNAs, Other mRNAs, Panda ESTs, RepeatMasker, Interrupted Rpts, Simple Repeats, Opossum Chain and Net, Dog Chain and Net, Mouse Chain and Net, Human Chain and Net, Rat Chain and Net. Downloads: bigZips, chromosomes, database. | 16 Apr 2010
Dog May 2005 (Broad/canFam2) (canFam2, Broad Institute v. 2.0)
Track/Table Name | Release Date
Cow Chain/Net | 07 Nov 2011
Ensembl Genes v64 | 07 Nov 2011
Ensembl gene update, version 63 | 30 Sep 2011
Chimp (Oct. 2010 (CGSC 2.1.3/panTro3)), Chain and Net Alignments | 24 May 2011
Ensembl gene update, version 62 | 12 May 2011
Ensembl gene update, version 61 | 10 Mar 2011
Ensembl gene update, version 59 | 23 Aug 2010
Cat Chain/Net | 17 Aug 2010
Ensembl gene update, version 58 | 21 Jun 2010
Marmoset Chain/Net | 03 Jun 2010
Ensembl gene update, version 57 | 20 Apr 2010
Panda Chain/Net | 16 Apr 2010
TransMap Alignments update | 17 Dec 2009
Chain and Net for Horse/equCab2 on Dog and Mouse | 03 Nov 2009
Opossum Chain/Net and liftOver | 24 Sep 2009
Chains and Nets for non-primate mammal species vs Human | 16 Sep 2009
Ensembl gene update to version 55 | 13 Aug 2009
ENCODE NHGRI Elnitski Bi-directional Promoters | 30 Jul 2009
quality score fasta files | 16 Jun 2009
Ensembl Genes v52 | 09 Feb 2009
Added alignments of non-coding RNAs (NR_*) to RefSeq and Xeno-RefSeq tracks. | 27 Oct 2008
Ensembl gene update (version 50) | 19 Aug 2008
TransMap | 17 Jul 2008
Marmoset Chain/Net/LiftOver (calJac1) | 24 Apr 2008
Ensembl genes, version 49 | 17 Apr 2008
Chain track, Net track, and liftOver file to bosTau4 | 08 Apr 2008
Mouse (Jul. 2007/mm9) Chained Alignments Mouse (Jul. 2007/mm9) Alignment Net | 07 Sep 2007
RefSeq Genes, Other RefSeq, Dog mRNAs, Spliced ESTs, Dog ESTs, Other mRNAs: reloaded tables to address problems caused by dog organism name change. | 16 Jul 2007
N-SCAN informant was incorrectly documented as mouse, human was actually used. | 18 Aug 2006
Human Proteins | 17 Aug 2006
Microsatellite Track: Di-nucleotide and Tri-nucleotide Repeats | 01 Aug 2006
Chimp (panTro2) Chains, Net and LiftOvers | 26 Jul 2006
gene prediction peptide tables | 24 Jul 2006
N-SCAN gene predictions from WUStL | 08 Jun 2006
NCBI accessions for assembly contigs (used for Assembly track details) | 05 Jan 2006
Mouse Chain/Net/LiftOver (mm7) | 22 Dec 2005
Dog (canFam2, May 2005, Broad Institute v2.0) Initial Release: Assembly, Gap, Quality Scores, GC Percent, Uncertified, BAC End Pairs, Short Match, Restr Enzymes, Human Proteins, Genscan Genes, Other RefSeq, Dog mRNAs, Other mRNAs, Dog ESTs, Spliced Ests, CpG Islands, Conservation, Most Conserved, Mouse Chain/Net (mm7), Rat Chain/Net (rn3), Human Chain/Net (hg17), Self Chain, RepeatMasker, Simple Repeats. Downloads: bigZips, chromosomes, database, comparatives, liftOvers. | 20 Dec 2005
Dog July 2004 (Broad/canFam1) (canFam1, Broad Institute v. 1.0)
Track/Table Name | Release Date
Added alignments of non-coding RNAs (NR_*) to RefSeq and Xeno-RefSeq tracks. | 27 Oct 2008
Microsatellites | 25 Feb 2008
RefSeq Genes, Other RefSeq, Dog mRNAs, Spliced ESTs, Dog ESTs, Other mRNAs: reloaded tables to address problems caused by dog organism name change. | 16 Jul 2007
SNP Alignment Display | 01 Dec 2006
SNP build 125 | 24 Aug 2006
N-SCAN gene predictions from Brent Lab at WUStL | 21 Apr 2006
Ensembl Genes | 07 Mar 2006
Keyword search by NCBI contig accession ID added. | 13 Jan 2006
BAC End Pairs | 02 Dec 2005
canFam1ToMm6 and mm6ToCanFam1 liftOver (Downloads, Batch Coordinate Conversion utility) | 05 Jul 2005
hg17ToCanFam1 and canFam1ToHg17 liftOver (Downloads, Batch Coordinate Conversion utility) | 05 Jul 2005
chain/net tracks to mm6 | 05 May 2005
Genscan (removed extensions) | 07 Jan 2005
Twinscan | 15 Nov 2004
Conservation (data update) | 06 Oct 2004
Human Chain, Human Net (chained and netted blastz alignments to May 2004 Human) | 30 Jul 2004
Conservation (dog-human-mouse multiz alignments, scored by phastCons) | 29 Jul 2004
Mouse Chain, Mouse Net (chained and netted blastz alignments to May 2004 Mouse) | 29 Jul 2004
Fugu BLAT (translated BLAT of Fugu scaffolds to Dog genome) | 26 Jul 2004
Initial canFam1 release (using Broad Institute WGS v1.0): Assembly, Gap, GC Percent, Genscan Genes, Dog mRNAs, Spliced ESTs, Dog ESTs, NonDog mRNAs, RepeatMasker, Simple Repeats Downloads: bigZips, chromosomes, database | 13 Jul 2004
Horse Sep. 2007 (Broad/equCab2) (equCab2, Broad Institute EquCab2)
Track/Table Name | Release Date
Ensembl Genes v64 | 07 Nov 2011
Ensembl gene update, version 63 | 30 Sep 2011
Ensembl gene update, version 62 | 12 May 2011
Chimp (Oct. 2010 (CGSC 2.1.3/panTro3)), Chain and Net Alignments | 29 Apr 2011
Sheep Chain/Net | 19 Apr 2011
Ensembl gene update, version 61 | 10 Mar 2011
Ensembl gene update, version 59 | 23 Aug 2010
Ensembl gene update, version 58 | 21 Jun 2010
Ensembl gene update, version 57 | 20 Apr 2010
Add alignments of non-horse refseq genes | 05 Feb 2010
TransMap Alignments update | 17 Dec 2009
Chain and Net tracks on Horse for: platypus and opossum | 08 Dec 2009
Chain and Net tracks on Horse for chicken | 09 Nov 2009
Chain and Net tracks on Horse for: mouse, dog | 03 Nov 2009
Chains and Nets for non-primate mammal species vs Human | 16 Sep 2009
Ensembl gene update to version 55 | 13 Aug 2009
quality score fasta files | 16 Jun 2009
Ensembl Genes v52 | 09 Feb 2009
Initial equCab2 release (using Broad Institute EquCab2): Assembly; Gap; GC Percent; Quality Scores; Short Match; Restr Enzymes; RefSeq Genes; Trans Map; Ensembl Genes; N-SCAN; Human Proteins; Horse mRNAs; Spliced ESTs; Horse ESTs; Non-Horse mRNAs; RepeatMasker; Interrupted Repeats; Simple Repeats. Downloads: bigZips, chromosomes, database. | 04 Dec 2008
Microbat Jul. 2010 (Broad Institute Myoluc2.0/myoLuc2) (myoLuc2, Broad Institute (NCBI Project ID: 16951, Accession: GCA_000147115.1))
Track/Table Name | Release Date
Initial microbat release (using Broad Institute (NCBI Project ID: 16951, Accession: GCA_000147115.1)): Assembly, Gap, Repeat Masker, Interrupted Repeats, Simple Repeats, CpG Islands, GC Percent, Human Proteins, Other RefSeq, Microbat mRNAs, Other mRNAs. | 02 Nov 2011
Horse Jan. 2007 (Broad/equCab1) (equCab1, Broad Institute equCab1 (1.0))
Track/Table Name | Release Date
quality score fasta files | 16 Jun 2009
Horse LiftOver (equCab2) | 04 Dec 2008
Added alignments of non-coding RNAs (NR_*) to RefSeq and Xeno-RefSeq tracks. | 27 Oct 2008
SGP and Geneid tracks | 02 Jan 2008
Mouse (Jul. 2007/mm9) Chained Alignments Mouse (Jul. 2007/mm9) Alignment Net | 16 Oct 2007
Initial equCab1 release (using Broad Institute equCab1 (1.0)): Assembly; Gap; GC Percent; Quality Scores; Short Match; Restr Enzymes; RefSeq Genes; N-SCAN; Human Proteins; Horse mRNAs; Spliced ESTs; Horse ESTs; Non-Horse mRNAs; Chains & Nets: Chicken, Rat, Mouse, Chimp, Human, Dog; RepeatMasker; WM + SDust; Simple Repeats. Downloads: bigZips, chromosomes, database, liftOvers, comparatives. | 14 May 2007
Pig Nov. 2009 (SGSC Sscrofa9.2/susScr2) (susScr2, SGSC Sscrofa9.2 (NCBI project 10718, GCA_000003025.2))
Track/Table Name | Release Date
Cow Chain/Net | 07 Nov 2011
Ensembl gene update, version 63 | 30 Sep 2011
Ensembl gene update, version 62 | 12 May 2011
Ensembl gene update, version 61 | 10 Mar 2011
Ensembl gene update, version 59 | 23 Aug 2010
Ensembl gene update, version 58 | 21 Jun 2010
Human Proteins | 12 May 2010
Initial susScr2 release (using SGSC Sscrofa9.2 (NCBI project 10718, GCA_000003025.2)): Assembly; Scaffolds; Gap; GC Percent; Short Match; Restr Enzymes; Ensembl Genes; Human Proteins; Pig mRNAs; Spliced ESTs; Pig ESTs; Non-Pig mRNAs; CpG Islands; Chain & Nets: Cow, Human, Mouse, Opossum; Pig Repeat Masker; Interrupted Rpts; Simple Repeats. Downloads: bigZips, chromosomes, database, liftOvers, comparatives. | 12 May 2010
Cow Nov. 2009 (Bos_taurus_UMD_3.1/bosTau6) (bosTau6, UMD_3.1 (NCBI project 10708, accession GCA_000003055.3))
Track/Table Name | Release Date
Initial bosTau6 release (using UMD_3.1 (NCBI project 10708, accession GCA_000003055.3)): Assembly, Gap, GC Percent, CpG Islands. Repeat Masker, Interrupted Repeats, Simple Repeats, Scaffolds, RefSeq Genes, Other RefSeq, Cow mRNAs, Spliced ESTs, Cow ESTs, Other mRNAs, Ensembl Genes, Pig Chain/Net, Platypus Chain/Net, Opossum Chain/Net, Dog Chain/Net, Mouse Chain/Net, Human Chain/Net, Rat Chain/Net. | 02 Nov 2011
Sheep Feb. 2010 (ISGC Ovis_aries_1.0/oviAri1) (oviAri1, ISGC (NCBI project 10709, accession GCA_000005525.1))
Track/Table Name | Release Date
oviAri1 Initial release (using ISGC (NCBI project 10709, accession GCA_000005525.1)): Assembly, Scaffolds, Gap, GC Percent, Short Match, Restr Enzymes, RefSeq Genes, Other RefSeq, Sheep mRNA, Spliced ESTs, Sheep ESTs, Other mRNAs, CpG Islands, Cow Chain/Net, Horse Chain/Net, Mouse Chain/Net, Human Chain/Net, Opossum Chain/Net, RepeatMasker, Interrupted Rpts, Simple Repeats. | 18 Apr 2011
Cow Oct. 2007 (Baylor 4.0/bosTau4) (bosTau4, Baylor Release 4.0)
Track/Table Name | Release Date
Ensembl gene update, version 63 | 30 Sep 2011
Ensembl gene update, version 62 | 12 May 2011
Sheep Chain/Net | 19 Apr 2011
Ensembl gene update, version 61 | 10 Mar 2011
Ensembl gene update, version 59 | 23 Aug 2010
LiftOver files for bosTau4 (Baylor 4.0) to/from bosTau5 (Baylor Btau_4.2) | 11 Aug 2010
Ensembl gene update, version 58 | 21 Jun 2010
Pig Chain/Net | 12 May 2010
Ensembl gene update, version 57 | 20 Apr 2010
TransMap Alignments update | 17 Dec 2009
Chains and Nets for non-primate mammal species vs Human | 16 Sep 2009
Ensembl gene update to version 55 | 13 Aug 2009
ENCODE NHGRI Elnitski Bi-directional Promoters | 30 Jul 2009
quality score fasta files | 16 Jun 2009
Ensembl Genes v52 | 09 Feb 2009
Added alignments of non-coding RNAs (NR_*) to RefSeq and Xeno-RefSeq tracks. | 27 Oct 2008
automated rebuilding of transcription start upstream fasta and MAF files based on genbank or refseq tracks. | 16 Oct 2008
Converted MGC track to PSL (to allow for alignment visualization) | 22 Sep 2008
Ensembl Genes (version 50) | 15 Aug 2008
TransMap | 17 Jul 2008
N-SCAN gene predictions from WUStL | 23 Apr 2008
Initial Bos taurus release (bosTau4; using Baylor Release 4.0). Assembly, Gap, GC Percent, Quality Scores, Short Match, Restr. Enzymes, RefSeq Genes, MGC Genes, Genscan Genes, Human Proteins, Cow mRNAs, Spliced ESTs, Cow ESTs, Non-Cow mRNAs, CpG Islands, Repeat Masker, Interrupted Repeats, Simple Repeats, 5-way Conservation and Most Conserved, Nets & Chains: Platypus, Mouse, Dog, Human. Downloads: bigZips, chromosomes, database. | 07 Apr 2008
Cow Aug. 2006 (Baylor 3.1/bosTau3) (bosTau3, Baylor Release 3.1)
Track/Table Name | Release Date
Added alignments of non-coding RNAs (NR_*) to RefSeq and Xeno-RefSeq tracks. | 27 Oct 2008
Converted MGC track to PSL (to allow for alignment visualization) | 22 Sep 2008
Ensembl Genes v49 | 23 Apr 2008
liftOver file to bosTau4 | 08 Apr 2008
Geneid Gene Predictions (data reload) | 01 Apr 2008
SGP and Geneid tracks | 02 Jan 2008
Mouse (Jul. 2007/mm9) Chained Alignments Mouse (Jul. 2007/mm9) Alignment Net | 16 Oct 2007
Initial Bos taurus release (bosTau3; using Baylor Release 3.1). Assembly, Gap, GC Percent, Quality Scores, Short Match, Restr. Enzymes, RefSeq Genes, MGC Genes, Genscan Genes, Human Proteins, Cow mRNAs, Spliced ESTs, Cow ESTs, Non-Cow mRNAs, CpG Islands, Repeat Masker, Interrupted Repeats, Simple Repeats, SNPs, Nets & Chains: Rat, Mouse, Human. Downloads: bigZips, chromosomes, database | 27 Aug 2007
Cow Mar. 2005 (Baylor 2.0/bosTau2) (bosTau2, Baylor Btau_2.0)
Track/Table Name | Release Date
Added alignments of non-coding RNAs (NR_*) to RefSeq and Xeno-RefSeq tracks. | 27 Oct 2008
Converted MGC track to PSL (to allow for alignment visualization) | 22 Sep 2008
Human Proteins track (updated from hg17 to hg18) | 27 Feb 2007
Added NCBI Clone Validation information to details of MGC genes | 12 Jan 2007
MGC Genes | 05 Sep 2006
LiftOvers: fr1, tetNig1, xenTro1, galGal2, bosTau2, rheMac1, panTro1, hg17, rn3 -> mm7; fr1, tetNig1, xenTro1, galGal2, panTro1 -> mm6; galGal2 -> danRer2, mm5, hg17, monDom1, tetNig1, xenTro1; rheMac1 -> hg17; panTro1 -> hg16, hg17 | 03 Jan 2006
Bos taurus (bosTau2, March 2005) Update Release: Assembly, Gap, Contig Orient, GC Percent, Quality Scores, Short Match, Restr. enzymes, Human Proteins, Other RefSeq, Genscan Genes, Cow mRNAs, Spliced ESTs, Cow ESTs, CpG Islands, Repeat Masker, Simple Repeats. Downloads: bigZips, chromosomes, database. | 04 Oct 2005
Elephant Jul. 2009 (Broad/loxAfr3) (loxAfr3, Broad Institute loxAfr3 (NCBI project 12569, AAGU03000000))
Track/Table Name | Release Date
Opossum Chain/Net | 21 Nov 2011
Ensembl Genes v64 | 07 Nov 2011
Ensembl gene update, version 63 | 30 Sep 2011
Ensembl gene update, version 62 | 12 May 2011
Ensembl gene update, version 61 | 10 Mar 2011
Ensembl gene update, version 59 | 23 Aug 2010
Ensembl gene update, version 58 | 21 Jun 2010
Ensembl gene update, version 57 | 20 Apr 2010
Initial loxAfr3 release (using Broad Institute loxAfr3 (NCBI project 12569, AAGU03000000)): Assembly, Gap, GC Percent, Quality Scores, RepeatMasker, Interrupted Rpts, Simple Repeats, Human Proteins, Other RefSeq, Elephant mRNAs, Other mRNAs, Human Chain and Net, Elephant Chain and Net, Mouse Chain and Net | 24 Mar 2010
Opossum Oct. 2006 (Broad/monDom5) (monDom5, Broad Institute monDom5 (NCBI project 12561, accession AAFR03000000))
Track/Table Name | Release Date
Elephant Chain/Net | 21 Nov 2011
X. tropicalis Chain/Net | 15 Nov 2011
Turkey Chain/Net | 07 Nov 2011
Cow Chain/Net | 07 Nov 2011
Ensembl Genes v64 | 07 Nov 2011
Ensembl gene update, version 63 | 30 Sep 2011
Chimp (Oct. 2010 (CGSC 2.1.3/panTro3)), Chain and Net Alignments | 09 Jun 2011
Ensembl gene update, version 62 | 12 May 2011
Sheep Chain/Net | 19 Apr 2011
Ensembl gene update, version 61 | 10 Mar 2011
Ensembl gene update, version 59 | 23 Aug 2010
Cat Chain/Net | 17 Aug 2010
Ensembl gene update, version 58 | 21 Jun 2010
Marmoset Chain/Net | 03 Jun 2010
Pig Chain/Net | 12 May 2010
Rabbit Chain/Net | 26 Apr 2010
Ensembl gene update, version 57 | 20 Apr 2010
Panda Chain/Net | 16 Apr 2010
LiftOver chain to/from monDom5 <--> xenTro2 | 05 Feb 2010
TransMap Alignments | 17 Dec 2009
Chain and Net to Horse (equCab2) | 08 Dec 2009
Dog Chain & Net, and liftOver | 12 Oct 2009
Vertebrate genomes, Chain and Net alignment tracks (primary release) | 29 Sep 2009
Most Conserved | 29 Sep 2009
Conservation (9 vertebrate alignment) | 29 Sep 2009
Chicken Chain and Net | 25 Sep 2009
Zebrafish Chain and Net | 25 Sep 2009
Platypus Chain/Net/LiftOver (ornAna1) | 24 Sep 2009
Orangutan Chain and Net | 22 Sep 2009
Ensembl update | 21 Sep 2009
Chimp Chain and Net | 20 Sep 2009
Initial monDom5 release (using Broad Institute monDom5 (NCBI project 12561, accession AAFR03000000)): Assembly, Gap, GC Percent, Quality Scores, RefSeq Genes, Non-Opposum RefSeq, Ensembl Genes, N-SCAN, Genscan Genes, Human Proteins, Opossum mRNAs, Spliced ESTs, Opossum ESTs, Non-Opposum mRNAs, CpG Islands, RepeatMasker, Interrupted Rpts, WM + SDust, Simple Repeats. | 22 Jul 2009
quality score fasta files | 16 Jun 2009
Opossum Jan. 2006 (Broad/monDom4) (monDom4, Broad Inst. monDom4 Jan06)
Track/Table Name | Release Date
TransMap Alignments update | 17 Dec 2009
LiftOver to monDom5 | 20 Jul 2009
quality score fasta files | 16 Jun 2009
Added alignments of non-coding RNAs (NR_*) to RefSeq and Xeno-RefSeq tracks. | 27 Oct 2008
TransMap | 17 Jul 2008
Guinea Pig Chain and Net | 11 Jun 2008
Marmoset Chain/Net/LiftOver (calJac1) | 24 Apr 2008
Mouse (Jul. 2007/mm9) Chained Alignments Mouse (Jul. 2007/mm9) Alignment Net | 04 Oct 2007
N-SCAN gene predictions from WUStL | 26 Sep 2006
Initial monDom4 release (using Broad Inst. Jan 2006 Draft Assembly): Assembly, Gap, GC Percent, Quality Scores, Oppossum mRNAs, Other mRNAs, Conservation, Most Conserved, Human Proteins, CpG Islands, RepeatMasker, Simple Repeats, Genscan Genes, Ensembl Genes, Opossum EST's, Spliced EST's, RefSeq Genes, Other RefSeq; Chains & Nets: Human, Chimp, Mouse, Rat, Chicken, X.tropicalis, Zebrafish; Downloads: bigZips, chromosomes, database. | 08 Aug 2006
hgdownload files for monDom4 | 24 May 2006
Opossum Oct. 2004 (Broad prelim/monDom1) (monDom1, Broad Inst. Prelim Oct04)
Track/Table Name | Release Date
Microsatellite Track: Di-nucleotide and Tri-nucleotide Repeats | 01 Aug 2006
Keyword search by NCBI contig accession ID added. | 13 Jan 2006
chain/net tracks to mm6 | 05 May 2005
Initial monDom1 release (using Broad Inst. Prelim Oct04): Assembly, Gap, GC Percent, Quality Scores, Oppossum mRNAs, Non-Opposum mRNAs, Conservation, Most Conserved, Human Proteins, Human Chain/Net, Mouse Chain/Net, Chicken Chain/Net, Zebrafish Chain/Net, CpG Islands, RepeatMasker, Simple Repeats. Downloads: bigZips, chromosomes, database. | 18 Jan 2005
Platypus Mar. 2007 (WUGSC 5.0.1/ornAna1) (ornAna1, WUSTL version 5.0.1)
Track/Table Name | Release Date
CpG Islands | 29 Nov 2011
Cow Chain/Net | 07 Nov 2011
Ensembl Genes v64 | 07 Nov 2011
Lizard Chain/Net | 12 Oct 2011
Ensembl gene update, version 63 | 30 Sep 2011
Ensembl gene update, version 62 | 12 May 2011
Ensembl gene update, version 61 | 10 Mar 2011
Ensembl gene update, version 59 | 23 Aug 2010
Ensembl gene update, version 58 | 21 Jun 2010
Ensembl gene update, version 57 | 20 Apr 2010
TransMap Alignments update | 17 Dec 2009
Chain and Net to Horse (equCab2) | 08 Dec 2009
Opossum Chain and Net | 24 Sep 2009
Ensembl gene update to version 55 | 13 Aug 2009
quality score fasta files | 16 Jun 2009
Ensembl Genes v52 | 02 Feb 2009
Quality Scores | 26 Nov 2008
Added alignments of non-coding RNAs (NR_*) to RefSeq and Xeno-RefSeq tracks. | 27 Oct 2008
Ensembl gene update (version 50) | 18 Aug 2008
TransMap | 17 Jul 2008
Marmoset Chain/Net/LiftOver (calJac1) | 24 Apr 2008
Ensembl v49 gene predictions | 15 Apr 2008
Chain track, Net track, and liftOver file to bosTau4 | 08 Apr 2008
Mouse (Jul. 2007/mm9) Chained Alignments Mouse (Jul. 2007/mm9) Alignment Net | 19 Oct 2007
Interrupted Rpts | 01 Oct 2007
WSSD Coverage | 20 Sep 2007
Regenerated with improved platypus library. | 24 Jul 2007
Initial ornAna1 release (using WUSTL version 5.0): gold, gap, gc5Base, ensGene, 6-way Conservation and phastCons, repeatMasker, simple repeats, Human Proteins, Platypus mRNAs, Spliced ESTs, Platypus ESTs, Other mRNAs, refSeq Genes, Chains and Nets: Lizard, Chicken, Opossum, Mouse, Human | 01 Jun 2007
Chicken May 2006 (WUGSC 2.1/galGal3) (galGal3, Chicken Genome Sequencing Consortium May 2006 release)
Track/Table Name | Release Date
X. tropicalis Chain/Net | 15 Nov 2011
Turkey Chain/Net | 07 Nov 2011
Ensembl Genes v64 | 07 Nov 2011
Lizard Chain/Net | 12 Oct 2011
Ensembl gene update, version 63 | 30 Sep 2011
Ensembl gene update, version 62 | 12 May 2011
Chimp (Oct. 2010 (CGSC 2.1.3/panTro3)), Chain and Net Alignments | 27 Apr 2011
Ensembl gene update, version 61 | 10 Mar 2011
Ensembl gene update, version 59 | 23 Aug 2010
Ensembl gene update, version 58 | 21 Jun 2010
Ensembl gene update, version 57 | 20 Apr 2010
Alignments of California Condor mRNA 454 sequences to chicken | 12 Jan 2010
TransMap Alignments update | 17 Dec 2009
Qauality Scores (update fixes omission of chrUn_random scores) | 10 Dec 2009
Chain and Net for Horse/equCab2 on Chicken | 09 Nov 2009
Vertebrate genomes, Chain and Net alignment tracks (primary release) | 29 Sep 2009
Opossum Chain and Net | 25 Sep 2009
Ensembl gene update to version 55 | 13 Aug 2009
quality score fasta files | 16 Jun 2009
Zebra finch Chain/Net/LiftOver (taeGut1) | 15 Jun 2009
N-SCAN gene predictions using Zebra Finch informant from Brent Lab, WUStL | 06 Apr 2009
Ensembl Genes v52 | 02 Feb 2009
Quality Scores | 26 Nov 2008
Added alignments of non-coding RNAs (NR_*) to RefSeq and Xeno-RefSeq tracks. | 27 Oct 2008
automated rebuilding of transcription start upstream fasta and MAF files based on genbank or refseq tracks. | 16 Oct 2008
Ensembl gene update (version 50) | 18 Aug 2008
TransMap | 17 Jul 2008
Guinea Pig Chain and Net | 11 Jun 2008
Lamprey Chain/Net/LiftOver (petMar1) | 10 Jun 2008
Lancelet Chain/Net/LiftOver (braFlo1) | 10 Jun 2008
Ensembl v49 gene predictions | 15 Apr 2008
Mouse (Jul. 2007/mm9) Chained Alignments Mouse (Jul. 2007/mm9) Alignment Net | 19 Oct 2007
removed "e-rows" from the upstream MAF files | 09 Jul 2007
Chains Nets and liftOvers to fr2 | 11 Apr 2007
Fugu (Aug. 2002/fr1) Chained Alignments | 17 Mar 2007
Fugu (Aug. 2002/fr1) Alignment Net | 17 Mar 2007
Initial galGal3 release (using Chicken Genome Sequencing Consortium May 2006 release): Assembly; Gap; GC Percent; BAC End Pairs; RefSeq Genes; Non-Chicken RefSeq Genes, GenScan Genes; Human Proteins; Chicken mRNAs; Spliced ESTs, Chicken ESTs, Non-Chicken mRNAs; CpG Islands; Conservation; Chains & Nets: Human, Mouse, Rat, Opossum, x. Tropicalis, Zebrafish; Repeat Masker; Simple Repeats; Microsatellite. Downloads: bigZips, chromosomes, database, liftover files. | 04 Aug 2006
Turkey Dec. 2009 (TGC Turkey_2.01/melGal1) (melGal1, TGC (NCBI Project ID: 10805, Accession: GCA_000146605.1))
Track/Table Name | Release Date
Initial melGal1 release (using TGC (NCBI Project ID: 10805, Accession: GCA_000146605.1)): Assembly, Gap, GC Percent, CpG Islands, Repeat Masker, Interrupted Repeats, Simple Repeats, Human Proteins, N-SCAN, Other RefSeq, Turkey mRNAs, Spliced ESTs, Turkey ESTs, Other mRNAs, X. tropicalis Chain/Net, Zebrafish Chain/Net, Chicken Chain/Net, Human Chain/Net, Mouse Chain/Net, Opossum Chain/Net, Rat Chain/Net, Zebra finch Chain/Net, xenTro2 Chain/Net. | 02 Nov 2011
Chicken Feb. 2004 (WUGSC 1.0/galGal2) (galGal2, Chicken Genome Sequencing Consortium Feb. 2004 release)
Track/Table Name | Release Date
Added alignments of non-coding RNAs (NR_*) to RefSeq and Xeno-RefSeq tracks. | 27 Oct 2008
liftOver files for galGal2 to galGal3 | 24 Aug 2006
Chimp (panTro2) Chains, Net and LiftOvers | 31 Jul 2006
Keyword search by NCBI contig accession ID added. | 13 Jan 2006
Ensembl Genes (update) | 12 Jan 2006
Updated with new predicitions from IMIM, using cow as well as human. | 11 Jan 2006
Updated galGal2 -> mm6 liftOver (Downloads, Batch Coordinate Conversion utility) | 06 Jan 2006
LiftOvers: fr1, tetNig1, xenTro1, galGal2, bosTau2, rheMac1, panTro1, hg17, rn3 -> mm7; fr1, tetNig1, xenTro1, galGal2, panTro1 -> mm6; galGal2 -> danRer2, mm5, hg17, monDom1, tetNig1, xenTro1; rheMac1 -> hg17; panTro1 -> hg16, hg17 | 03 Jan 2006
Tetraodon Chain/Net Alignments (Feb. 2004 tetNig1) | 12 May 2005
Zebrafish Chain/Net Alignments (June 2004 danRer2) | 12 May 2005
X. tropicalis Chain/Net Alignments (Oct. 2004 xenTro1) | 12 May 2005
Isochores | 06 May 2005
chain/net tracks to mm6 | 05 May 2005
conservation tracks (Conservation, Most Conserved) | 05 May 2005
Human Chain, Human Net (updated to May 2004 assembly) | 24 Jan 2005
Updated SGP Genes. | 29 Sep 2004
cpgIslands (data update) replace WUSTL cpgIslands with calculations by Andy Law, Roslin Institute | 29 Sep 2004
Human Proteins | 14 Sep 2004
Tetraodon Ecores | 20 Aug 2004
Contamination (alignments of Maize mitochondrion, E. Coli and vector sequence to WGS assembly) | 03 Aug 2004
BGI SNPs, BGI Genes, BGI Coverage (Beijing Genomics Institute SNPs, gene annotations and read coverage locations) | 02 Aug 2004
SGP Genes | 21 Jun 2004
Ensembl Genes | 18 Jun 2004
Twinscan | 17 Jun 2004
RNA Genes | 30 Apr 2004
CpG Island (updated) | 06 Apr 2004
Geneid Genes (updated) | 17 Mar 2004
BAC End Pairs, Genscan Genes, Geneid Genes, UniGene, CpG Island, Fugu Blat, GC Percent, Quality Scores, Human Chain, Human Net, Human Synteny, Self Chain, Self Net | 10 Mar 2004
Initial galGal2 Release (using the Feb. 2004 assembly): Supercontigs, Assembly, Gap, Chicken mRNAs, Spliced ESTs, Chicken ESTs, NonChicken mRNAs, RepeatMasker, Simple Repeats. Downloads: bigZips, chromosome, database. | 01 Mar 2004
Zebra finch Jul. 2008 (WUGSC 3.2.4/taeGut1) (taeGut1, Washington University taeGut1)
Track/Table Name | Release Date
Turkey Chain/Net | 07 Nov 2011
Ensembl Genes v64 | 07 Nov 2011
Ensembl gene update, version 63 | 30 Sep 2011
Ensembl gene update, version 62 | 12 May 2011
Ensembl gene update, version 61 | 10 Mar 2011
Ensembl gene update, version 59 | 23 Aug 2010
Ensembl gene update, version 58 | 21 Jun 2010
Ensembl gene update, version 57 | 20 Apr 2010
TransMap Alignments | 17 Dec 2009
Vertebrate genomes, Chain and Net alignment tracks (secondary release) | 09 Oct 2009
Ensembl genes version 55 | 12 Aug 2009
quality score fasta files | 16 Jun 2009
Chicken Chain/Net/LiftOver (galGal3) | 15 Jun 2009
N-SCAN gene predictions from Brent Lab at WUStL | 28 Apr 2009
Updated Quality Scores | 04 Dec 2008
Added alignments of non-coding RNAs (NR_*) to RefSeq and Xeno-RefSeq tracks. | 27 Oct 2008
Human Proteins | 15 Sep 2008
Initial taeGut1 release (using Washington University taeGut1): Assembly, Gap, GC Percent, Quality Scores, RefSeq Genes, Non-zebra finch Refseq Genes, Zebra Finch ESTs, spliced ESTs, Zebra Finch mRNAs, non-Zebra Finch mRNAs, repeatMasker, windowMaskerSDust | 28 Aug 2008
Lizard May 2010 (Broad AnoCar2.0/anoCar2) (anoCar2, Broad Institute of MIT and Harvard AnoCar 2.0 (GCA_000090745.1))
Track/Table Name | Release Date
X. tropicalis Chain/Net | 15 Nov 2011
Ensembl Genes v64 | 07 Nov 2011
Ensembl gene update, version 63 | 30 Sep 2011
CpG Islands (Islands < 300 Bases are Light Green) | 26 Sep 2011
Multiz Alignment & Conservation (7 Species) | 01 Jul 2011
Initial anoCar2 release (using Broad Institute of MIT and Harvard AnoCar 2.0 (GCA_000090745.1)): Assembly, Gap, GC Percent, Short Match, Restr Enzymes, Other RefSeq, Lizard mRNAs, Spliced ESTs, Lizard ESTs, Other mRNAs, RepeatMasker, Interrupted Rpts, WM + SDust, Simple Repeats, Ensembl Gene v62, Stickleback Chain and Net, Platypus Chain and Net, X. Tropicalis Chain and Net, Chicken Chain and Net, Human Chain and Net, Human Proteins | 09 Jun 2011
Lizard Feb. 2007 (Broad/anoCar1) (anoCar1, Broad Institute AnoCar (1.0))
Track/Table Name | Release Date
Ensembl gene update, version 59 | 23 Aug 2010
Ensembl gene update, version 58 | 21 Jun 2010
Ensembl gene update, version 57 | 20 Apr 2010
TransMap Alignments update | 17 Dec 2009
Vertebrate genomes, Chain and Net alignment tracks (secondary release) | 09 Oct 2009
Ensembl genes version 55 | 12 Aug 2009
Added alignments of non-coding RNAs (NR_*) to RefSeq and Xeno-RefSeq tracks. | 27 Oct 2008
TransMap | 17 Jul 2008
Mouse (Jul. 2007/mm9) Chained Alignments Mouse (Jul. 2007/mm9) Alignment Net | 16 Oct 2007
Initial anoCar1 release (using Broad Institute AnoCar (1.0)): Assembly; Gap; GC Percent; Quality Scores; Genscan Genes; Human Proteins; Repeat Masker; Simple Repeats; Window Masker; Lizard & non-Lizard mRNAs; non-Lizard RefSeq. Chains & Nets: Human, Stickleback, X.tropicalis, Mouse, Chicken. Downloads: bigZips, database, liftOvers, comparatives. | 23 May 2007
X. tropicalis Nov. 2009 (JGI 4.2/xenTro3) (xenTro3, US DOE Joint Genome Institute (JGI-PGF) (GCA_000004195.1))
Track/Table Name | Release Date
Initial xenTro3 release (using US DOE Joint Genome Institute (JGI-PGF) (GCA_000004195.1)): Assembly, Gap, GC Percent, CpG Islands, Repeat Masker, Interrupted Repeats, Simple Repeats, Human Proteins, Microsatellite, WM + SDust, Genscan Genes, Scaffolds, RefSeq Genes, XGC Genes, X. tropicalis mRNAs, Spliced ESTs, X. tropicalis ESTs, Ensembl Genes, Lizard Chain/Net, Zebrafish Chain/Net, Chicken Chain/Net, Human Chain/Net, Turkey Chain/Net, Mouse Chain/Net, Opossum Chain/Net, Rat Chain/Net. | 02 Nov 2011
X. tropicalis Aug. 2005 (JGI 4.1/xenTro2) (xenTro2, JGI v4.1)
Track/Table Name | Release Date
Lizard Chain/Net | 12 Oct 2011
Zebrafish Chain/Net | 18 Mar 2011
Ensembl gene update, version 61 | 10 Mar 2011
Ensembl gene update, version 59 | 23 Aug 2010
Ensembl gene update, version 58 | 21 Jun 2010
Ensembl gene update, version 57 | 20 Apr 2010
Zebrafish Chain/Net composite tracks | 09 Mar 2010
LiftOver chain to/from monDom5 <--> xenTro2 | 05 Feb 2010
TransMap Alignments update | 17 Dec 2009
Vertebrate genomes, Chain and Net alignment tracks (primary release) | 29 Sep 2009
Ensembl gene update to version 55 | 13 Aug 2009
Ensembl Genes v52 | 02 Feb 2009
Added alignments of non-coding RNAs (NR_*) to RefSeq and Xeno-RefSeq tracks. | 27 Oct 2008
automated rebuilding of transcription start upstream fasta and MAF files based on genbank or refseq tracks. | 16 Oct 2008
Converted MGC track to PSL (to allow for alignment visualization) | 22 Sep 2008
Ensembl gene update (version 50) | 19 Aug 2008
TransMap | 17 Jul 2008
Ensembl genes, version 49 | 17 Apr 2008
Mouse (Jul. 2007/mm9) Chained Alignments Mouse (Jul. 2007/mm9) Alignment Net | 05 Nov 2007
Added NCBI Clone Validation information to details of MGC genes | 12 Jan 2007
Microsatellite Track: Di-nucleotide and Tri-nucleotide Repeats | 01 Aug 2006
Human Proteins | 20 Jun 2006
Initial xenTro2 release (version 4.1 using JGI Jazzer Assembler): Assembly; Gap; GC Percent; Known Genes; RefSeq Genes; MGC Genes; Genscan Genes; X. tropicalis mRNAs; cpg Islands; Spliced ESTs; X. tropicalis ESTs; Chains & Nets: Zebrafish, Rat, Human, Mouse, Chicken; RepeatMasker; Simple Repeats. Downloads: bigZips, chromosomes, database, vsDanRer4, vsHg18, vsGalGal2, vsMm8, vsRn4 | 13 Jun 2006
X. tropicalis Oct. 2004 (JGI 3.0/xenTro1) (xenTro1, JGI v3.0)
Track/Table Name | Release Date
Converted MGC track to PSL (to allow for alignment visualization) | 22 Sep 2008
Lift over to xenTro2 | 28 Feb 2007
Added NCBI Clone Validation information to details of MGC genes | 12 Jan 2007
LiftOvers: fr1, tetNig1, xenTro1, galGal2, bosTau2, rheMac1, panTro1, hg17, rn3 -> mm7; fr1, tetNig1, xenTro1, galGal2, panTro1 -> mm6; galGal2 -> danRer2, mm5, hg17, monDom1, tetNig1, xenTro1; rheMac1 -> hg17; panTro1 -> hg16, hg17 | 03 Jan 2006
chain/net tracks to mm6 | 05 May 2005
JGI Filtered Genes | 18 Mar 2005
Human Proteins (data update) | 03 Mar 2005
MGC Genes | 14 Jan 2005
Genscan (removed extensions) | 07 Jan 2005
Frog Browser Initial Release (using JGI version 3.0): Assembly, Gap, GC Percent, Mapped Human, Genscan, Frog mRNA, Spliced ESTs, Frog ESTs, CpG Islands, Conservation, Most Conserved, Fugu Blat, Zebrafish Chain/Net, Mouse Chain/Net, Human Chain/Net, Chicken Chain/Net, RepeatMasker, Simple Repeats | 17 Nov 2004
Zebrafish Jul. 2010 (Zv9/danRer7) (danRer7, Wellcome Trust Sanger Institute Zv9 (GCA_000002035.2))
Track/Table Name | Release Date
X. tropicalis Chain/Net | 15 Nov 2011
Turkey Chain/Net | 07 Nov 2011
Ensembl Genes v64 | 07 Nov 2011
UMass ChIP-Seq | 03 Nov 2011
Multiz Alignment & Conservation; PhyloP; PhastCons (8 Species) | 05 Oct 2011
Ensembl gene update, version 63 | 30 Sep 2011
CpG Islands (Islands < 300 Bases are Light Green) | 04 Aug 2011
Ensembl gene update, version 62 | 12 May 2011
Chimp (Oct. 2010 (CGSC 2.1.3/panTro3)), Chain and Net Alignments | 11 Mar 2011
NCBI Incident database | 10 Mar 2011
Ensembl gene update, version 61 | 10 Mar 2011
Fish Chain and Net: Stickleback, Medaka, Tetraodon, Fugu | 04 Mar 2011
Vertebrate Chain and Net: X. tropicalis, Mouse, Human | 04 Mar 2011
Initial danRer7 release (using Wellcome Trust Sanger Institute Zv9 (GCA_000002035.2)): Assembly, Contigs, Gap, GC Percent, Ensembl Genes, RepeatMasker, Interrupted Rpts, Simple Repeats, Human Proteins, Short Match, Restriction Enzymes, RefSeq Genes, Other RefSeq, Zebrafish mRNAs, Spliced ESTs, Zebrafish ESTs, Other mRNAs. | 20 Jan 2011
Zebrafish Dec. 2008 (Zv8/danRer6) (danRer6, Wellcome Trust Sanger Institute, Zv8 assembly (CAAK00000000.5))
Track/Table Name | Release Date
Ensembl gene update, version 59 | 23 Aug 2010
Conservation, Most Conserved | 19 Jul 2010
Ensembl gene update, version 58 | 21 Jun 2010
Ensembl gene update, version 57 | 20 Apr 2010
liftOver file: danRer6 to danRer5 | 06 Apr 2010
Tetraodon Chain/Net and liftOver file | 12 Mar 2010
Human Chain/Net composite tracks | 09 Mar 2010
Mouse Chain/Net composite tracks | 08 Mar 2010
Stickleback Chain/Net composite tracks | 08 Mar 2010
Initial danRer6 release (using Wellcome Trust Sanger Institute, Zv8 assembly (CAAK00000000.5)): Assembly, Gap, GC Percent, Ensembl Genes, CpG Islands, RepeatMasker, Interrupted Rpts, Simple Repeats, Human Proteins, Self Chain, Medaka Chain and Net, Human Chain and Net, TransMap, liftover danRer5 to danRer6 | 14 Jan 2010
Zebrafish July 2007 (Zv7/danRer5) (danRer5, Wellcome Trust Sanger Institute, Zv7 assembly)
Track/Table Name | Release Date
UMass ChIP-Seq | 03 Nov 2011
TransMap Alignments update | 17 Dec 2009
Vertebrate genomes, Chain and Net alignment tracks (primary release) | 29 Sep 2009
Opossum Chain and Net | 25 Sep 2009
Ensembl update | 21 Sep 2009
Ensembl Genes v52 | 02 Feb 2009
Medaka Chain and Net | 19 Nov 2008
Added alignments of non-coding RNAs (NR_*) to RefSeq and Xeno-RefSeq tracks. | 27 Oct 2008
Converted MGC track to PSL (to allow for alignment visualization) | 22 Sep 2008
Ensembl gene update (version 50) | 18 Aug 2008
TransMap | 17 Jul 2008
Ensembl v49 gene predictions | 15 Apr 2008
Human Chain/Net/LiftOver (hg18) | 29 Oct 2007
Human Proteins Mapped by Chained tBLASTn | 18 Oct 2007
Initial danRer5 release (using Wellcome Trust Sanger Institute, Zv7 assembly): Map Contigs; Assembly; Gap; GC Percent; Ensembl Genes; RefSeq Genes; ZGC Genes; Vega Genes; Vega Pseudogenes; Zebrafish mRNAs; Spliced ESTs; Zebrafish ESTs; NonZfish mRNAs; Wild Type Array; Affy Zebrafish; Chains & Nets: Fugu, Tetraodon, Mouse, Medaka; RepeatMasker; Interrupted Repeats; Simple Repeats. Downloads: bigZips, chromosomes, database. | 15 Oct 2007
Zebrafish Mar. 2006 (Zv6/danRer4) (danRer4, Sanger Centre, Danio rerio Sequencing Project Zv6)
Track/Table Name | Release Date
Added alignments of non-coding RNAs (NR_*) to RefSeq and Xeno-RefSeq tracks. | 27 Oct 2008
automated rebuilding of transcription start upstream fasta and MAF files based on genbank or refseq tracks. | 16 Oct 2008
Converted MGC track to PSL (to allow for alignment visualization) | 22 Sep 2008
Updated mouse column in Gene Sorter and in Orthologous Genes section of gene details pages to mm9 UCSC Genes | 19 Oct 2007
Added CONTRAST gene predictions | 17 Oct 2007
removed "e-rows" from the upstream MAF files | 09 Jul 2007
Radiation Hybrid Map | 07 May 2007
Affy Zebrafish Wild Type Array | 23 Apr 2007
Chains Nets and liftOvers to fr2 | 11 Apr 2007
Update of hgBlastTab tables (to hg18) to coincide with UCSC Genes | 06 Apr 2007
Ensembl Genes | 12 Feb 2007
Added NCBI Clone Validation information to details of MGC genes | 12 Jan 2007
N-SCAN gene predictions from WUStL | 01 Sep 2006
Microsatellite Track: Di-nucleotide and Tri-nucleotide Repeats | 01 Aug 2006
Chimp (panTro2) Chains, Net and LiftOvers | 31 Jul 2006
Rat (rn4) Chain/Net/liftOver | 21 Jun 2006
Updated frame annotation for Conservation track to fix error with spliced codons | 15 Jun 2006
Genscan Genes | 01 Jun 2006
chains and nets to Mouse (mm8) | 31 May 2006
Human Proteins | 31 May 2006
Initial danRer4 release (using Sanger Centre Build Zv6): Map Contigs; Assembly; Gap; GC Percent; RefSeq Genes; ZGC Genes; Zebrafish mRNAs; Spliced ESTs; Zebrafish ESTs; NonZfish mRNAs; Affy Zebrafish; Chains & Nets: Fugu, Tetraodon, X. tropicalis, Opossum, Human; RepeatMasker; Simple Repeats. Downloads: bigZips, chromosomes, database | 25 May 2006
Zebrafish May 2005 (Zv5/danRer3) (danRer3, Sanger Centre, Danio rerio Sequencing Project Zv5)
Track/Table Name | Release Date
Added alignments of non-coding RNAs (NR_*) to RefSeq and Xeno-RefSeq tracks. | 27 Oct 2008
automated rebuilding of transcription start upstream fasta and MAF files based on genbank or refseq tracks. | 16 Oct 2008
Converted MGC track to PSL (to allow for alignment visualization) | 22 Sep 2008
Radiation Hybrid Map | 07 May 2007
Affy Zebrafish Wild Type Array | 23 Apr 2007
Update of dmBlastTab tables (to dm2) to coincide with Fly Base v4.3 Genes | 20 Apr 2007
Added NCBI Clone Validation information to details of MGC genes | 12 Jan 2007
BAC End Pairs/Singles (data update) | 08 Aug 2006
Updated frame annotation for Conservation track to fix error with spliced codons | 15 Jun 2006
liftOver file: danRer3 to danRer2 | 11 May 2006
Zebrafish (Danio rerio) Initial Release (danRer3, May 2005, Zv5): Scaffolds, Contigs, Gap, BAC End Pairs/Singles, GC Percent, Short Match, Restr Enzymes, RefSeq Genes, ZGC Genes, Ensembl Genes, Zebrafish mRNAs, Spliced ESTs, Zebrafish ESTs, Other mRNAs, TIGR Gene Index, Affy Zebrafish, 5-way Conservation, Most Conserved, Human Proteins (hg17), Human Chain/Net (hg18), Mouse Chain/Net/LiftOver (mm7), Fugu Chain/Net/LiftOver (fr1), Tetraodone Chain/Net/LiftOver (tetNig1), Repeat Masker, Simple Repeats, Self Chain. Downloads: bigZips, database, comparatives, chromosomes, liftOvers. | 17 Feb 2006
Tetraodon Mar. 2007 (Genoscope 8.0/tetNig2) (tetNig2, Genoscope Tetraodon v8.0 (NCBI project 12350, CAAE01000000))
Track/Table Name | Release Date
Ensembl Genes v64 | 07 Nov 2011
Ensembl gene update, version 63 | 30 Sep 2011
Ensembl gene update, version 62 | 12 May 2011
Zebrafish Chain/Net | 17 Mar 2011
Ensembl gene update, version 61 | 10 Mar 2011
Ensembl gene update, version 59 | 23 Aug 2010
Ensembl gene update, version 58 | 21 Jun 2010
Ensembl gene update, version 57 | 20 Apr 2010
Initial tetNig2 release (using Genoscope Tetraodon v8.0 (NCBI project 12350, CAAE01000000)): Scaffolds, Gap, GC Percent, TransMap Genes, Ensembl Genes, Genoscope GAZE Genes, Human Proteins, mRNAs, other mRNAs, CpG Islands, Interrupted Rpts, Simple Repeats, Window Masker, Chains & Nets: Human, Mouse, Fugu, Stickleback, Medaka, Zebrafish | 11 Mar 2010
Tetraodon Feb. 2004 (Genoscope 7/tetNig1) (tetNig1, Genoscope and Broad Institute V7 (NCBI project 12350, CAAE01000000))
Track/Table Name | Release Date
TransMap Alignments update | 17 Dec 2009
Vertebrate genomes, Chain and Net alignment tracks (secondary release) | 09 Oct 2009
Medaka Chain and Net | 19 Nov 2008
Human Proteins Mapped by Chained tBLASTn | 28 Jul 2008
TransMap | 17 Jul 2008
Ensembl genes, version 49 | 17 Apr 2008
Mouse (Jul. 2007/mm9) Chained Alignments Mouse (Jul. 2007/mm9) Alignment Net | 10 Sep 2007
N-SCAN gene predictions from WUStL | 27 Aug 2007
Chains Nets and liftOvers to fr2 | 11 Apr 2007
Zebrafish Chain/Net/LiftOver (danRer3) | 21 Feb 2006
Keyword search by NCBI contig accession ID added. | 13 Jan 2006
LiftOvers: fr1, tetNig1, xenTro1, galGal2, bosTau2, rheMac1, panTro1, hg17, rn3 -> mm7; fr1, tetNig1, xenTro1, galGal2, panTro1 -> mm6; galGal2 -> danRer2, mm5, hg17, monDom1, tetNig1, xenTro1; rheMac1 -> hg17; panTro1 -> hg16, hg17 | 03 Jan 2006
chain/net tracks to mm6 | 05 May 2005
Human Ecores | 15 Feb 2005
Self Chain, Self Net | 26 Jan 2005
Cytokine Genes (removed extensions) | 10 Jan 2005
HOX Genes (removed extensions) | 10 Jan 2005
Genoscope GAZE (removed extensions) | 10 Jan 2005
Genscan (removed extensions) | 07 Jan 2005
Geneid Gene Predictions | 29 Sep 2004
Cytokine Genes | 17 Sep 2004
HOX Genes | 15 Sep 2004
Genoscope GAZE gene predictions | 15 Sep 2004
Mouse Chain, Net (mm5) | 13 Sep 2004
Initial tetNig1 release (Genoscope v6): Scaffolds, Gap, GC Percent, Short Match, Genscan, mRNAs, Spliced ESTs, ESTs, Xeno ESTs, Human Chain/Net, Fugu Chain/Net, RepeatMasker, Simple Repeats. Downloads: bigZips, chromosomes, database, comparatives. | 10 Sep 2004
Fugu Oct. 2004 (JGI 4.0/fr2) (fr2, JGI V4.0)
Track/Table Name | Release Date
Ensembl Genes v64 | 07 Nov 2011
Ensembl gene update, version 63 | 30 Sep 2011
Ensembl gene update, version 62 | 12 May 2011
Ensembl gene update, version 61 | 10 Mar 2011
Zebrafish Chain/Net | 24 Feb 2011
Ensembl gene update, version 59 | 23 Aug 2010
Ensembl gene update, version 58 | 21 Jun 2010
Ensembl gene update, version 57 | 20 Apr 2010
Tetraodon Chain/Net and liftOver file | 12 Mar 2010
TransMap Alignments update | 17 Dec 2009
Vertebrate genomes, Chain and Net alignment tracks (secondary release) | 09 Oct 2009
Ensembl gene update to version 55 | 13 Aug 2009
Ensembl Genes v52 | 18 Feb 2009
Medaka Chain and Net | 19 Nov 2008
Ensembl gene update (version 50) | 18 Aug 2008
TransMap | 17 Jul 2008
Ensembl v49 gene predictions | 15 Apr 2008
Mouse (Jul. 2007/mm9) Chained Alignments Mouse (Jul. 2007/mm9) Alignment Net | 14 Sep 2007
removed "e-rows" from the upstream MAF files | 09 Jul 2007
Initial fr2 release (using JGI Oct 2004 build): Assembly; Gap; GC Percent; Ensembl Genes; Human Proteins; Repeat Masker; Simple Repeats; Window Masker; Fugu & non-Fugu mRNAs; Fugu ESTs; Spliced ESTs. Conservation; Most Conserved; Chains & Nets: Human, Chicken, Zebrafish, Stickleback, Medaka, Tetraodon. Downloads: bigZips, chromosomes, database, liftOvers, multiz, phastCons. | 11 Apr 2007
Fugu Aug. 2002 (JGI 3.0/fr1) (fr1, JGI V3.0)
Track/Table Name | Release Date
Chicken (May 2006/galGal3) Alignment Net | 17 Mar 2007
Chicken (May 2006/galGal3) Chained Alignments | 17 Mar 2007
Zebrafish Chain/Net/LiftOver (danRer3) | 21 Feb 2006
LiftOvers: fr1, tetNig1, xenTro1, galGal2, bosTau2, rheMac1, panTro1, hg17, rn3 -> mm7; fr1, tetNig1, xenTro1, galGal2, panTro1 -> mm6; galGal2 -> danRer2, mm5, hg17, monDom1, tetNig1, xenTro1; rheMac1 -> hg17; panTro1 -> hg16, hg17 | 03 Jan 2006
chain/net tracks to mm6 | 05 May 2005
Zebrafish (danRer2) Chain and Net | 06 Jan 2005
Human Proteins | 14 Sep 2004
Human Ecores, Mouse Ecores, Rat Ecores | 07 Jun 2004
Twinscan | 29 Jan 2004
Initial fr1 Release (using JGI V3.0): Scaffolds, Gap, GC Percent, Ensembl Genes, Genscan Genes, Fugu mRNAs, Fugu ESTs, Non-Fugu mRNAs, CpG Islands, Human Blat, RepeatMasker, Simple Repeats. Downloads: bigZips, database | 23 Sep 2003
Stickleback Feb. 2006 (Broad/gasAcu1) (gasAcu1, Broad Institute gasAcu1 (1.0) (NCBI project 13579, AANH01000000))
Track/Table Name | Release Date
Ensembl Genes v64 | 07 Nov 2011
Lizard Chain/Net | 12 Oct 2011
Ensembl gene update, version 63 | 30 Sep 2011
Ensembl gene update, version 62 | 12 May 2011
Ensembl gene update, version 61 | 10 Mar 2011
Zebrafish Chain/Net | 01 Mar 2011
Ensembl gene update, version 59 | 23 Aug 2010
Ensembl gene update, version 58 | 21 Jun 2010
Ensembl gene update, version 57 | 20 Apr 2010
Tetraodon Chain/Net and liftOver file | 12 Mar 2010
Zebrafish Chain/Net composite tracks | 08 Mar 2010
TransMap Alignments update | 17 Dec 2009
Vertebrate genomes, Chain and Net alignment tracks (secondary release) | 09 Oct 2009
Ensembl gene update to version 55 | 13 Aug 2009
quality score fasta files | 16 Jun 2009
Ensembl Genes v52 | 18 Feb 2009
Medaka Chain and Net | 19 Nov 2008
Ensembl gene update (version 50) | 18 Aug 2008
TransMap | 17 Jul 2008
Ensembl v49 gene predictions | 15 Apr 2008
Mouse (Jul. 2007/mm9) Chained Alignments Mouse (Jul. 2007/mm9) Alignment Net | 12 Sep 2007
removed "e-rows" from the upstream MAF files | 09 Jul 2007
N-SCAN gene predictions from WUStL | 08 Jun 2007
Chains Nets and liftOvers to fr2 | 11 Apr 2007
Initial gasAcu1 release (using Broad Institute gasAcu1 (1.0)): Assembly, Gap, GC Percent, Quality, Short Match, Restr Enzymes, Ensembl Genes, Human Proteins, Stickleback mRNAs, Stickleback ESTs, Spliced ESTs, Non-Stickleback mRNAs, Conservation, RepeatMasker, WM+SDust Simple Repeats. Downloads: bigZips, database, liftOver, comparatives | 28 Mar 2007
Medaka Oct. 2005 (NIG/UT MEDAKA1/oryLat2) (oryLat2, NIG and Tokyo Univ MEDAKA1 (NCBI project 16702, BAAF04000000))
Track/Table Name | Release Date
Ensembl Genes v64 | 07 Nov 2011
Ensembl gene update, version 63 | 30 Sep 2011
Zebrafish Chain/Net | 13 Jun 2011
Ensembl gene update, version 62 | 12 May 2011
Ensembl gene update, version 61 | 10 Mar 2011
Ensembl gene update, version 59 | 23 Aug 2010
Ensembl gene update, version 58 | 21 Jun 2010
Ensembl gene update, version 57 | 20 Apr 2010
Tetraodon Chain/Net and liftOver file | 12 Mar 2010
Zebrafish Chain and Net | 12 Jan 2010
TransMap Alignments | 17 Dec 2009
Vertebrate genomes, Chain and Net alignment tracks (secondary release) | 09 Oct 2009
Ensembl gene update to version 55 | 13 Aug 2009
quality score fasta files | 16 Jun 2009
Ensembl Genes v52 | 18 Feb 2009
Human Proteins | 18 Feb 2009
Initial oryLat2 release (using NIG and Tokyo Univ MEDAKA1) : Assembly, Scaffolds, Gap, GC Percent, Quality Scores, RefSeq Genes, Non-Medaka RefSeq, Ensembl Genes, Medaka mRNAs, Spliced ESTs, Medaka ESTs, Non-Medaka mRNAs, Conservation, Most Conserved, Chains & Nets: Human, Mouse, Zebrafish, Fugu, Tetraodon, Stickleback, Lamprey, RepeatMasker, Interrupted Rpts ,WM + SDust, Simple Repeats, Microsatellite. Downloads: bigZips, database, liftOver, multiz, phastCons, vsDanRer5, vsFr2, vsGasAcu1, vsHg18, vsMm9, vsPetMar1, vsTetNig1. | 13 Nov 2008
Lamprey Mar. 2007 (WUGSC 3.0/petMar1) (petMar1, WUSTL v.3.0 (March 2007))
Track/Table Name | Release Date
TransMap Alignments update | 17 Dec 2009
Vertebrate genomes, Chain and Net alignment tracks (secondary release) | 09 Oct 2009
quality score fasta files | 16 Jun 2009
Quality Scores | 26 Nov 2008
Medaka Chain and Net | 19 Nov 2008
Added alignments of non-coding RNAs (NR_*) to RefSeq and Xeno-RefSeq tracks. | 27 Oct 2008
automated rebuilding of transcription start upstream fasta and MAF files based on genbank or refseq tracks. | 16 Oct 2008
TransMap | 17 Jul 2008
Initial petMar1 release (using WUSTL v.3.0 (March 2007)): Assembly, Gap, GC Percent, Short Match, Restriction Enzymes, Other RefSeq Genes, Human Proteins, mRNAs, Other mRNAs, Spliced ESTs, Interrupted Repeats, Window Masker, Simple Repeats, 6-way Conservation, Chains & Nets: Lancelet, Medaka, Chicken, Mouse, Human. Downloads: BigZips, Database, LiftOver, Conservation, Pairwise Alignments. | 09 Jun 2008
Lancelet Mar. 2006 (JGI 1.0/braFlo1) (braFlo1, JGI v.1.0 (March 2006))
Track/Table Name | Release Date
Added alignments of non-coding RNAs (NR_*) to RefSeq and Xeno-RefSeq tracks. | 27 Oct 2008
automated rebuilding of transcription start upstream fasta and MAF files based on genbank or refseq tracks. | 16 Oct 2008
Initial braFlo1 release (using JGI v.1.0 (March 2006)): Scaffolds, Gap, GC Percent, Short Match, Restriction Enzymes, Other RefSeq Genes, Human Proteins, mRNAs, Other mRNAs, Spliced ESTs, Window Masker, Simple Repeats, 5-way Conservation, Chains & Nets: Lamprey, Chicken, Mouse, Human. Downloads: BigZips, Chromosomes, Database, LiftOver, Conservation, Pairwise Alignments. | 09 Jun 2008
C. intestinalis Mar. 2005 (JGI 2.1/ci2) (ci2, JGI v2.0)
Track/Table Name | Release Date
Ensembl Genes v64 | 07 Nov 2011
Ensembl gene update, version 63 | 30 Sep 2011
Ensembl gene update, version 62 | 12 May 2011
Ensembl gene update, version 61 | 10 Mar 2011
Ensembl gene update, version 59 | 23 Aug 2010
Ensembl gene update, version 58 | 21 Jun 2010
Ensembl gene update, version 57 | 20 Apr 2010
Ensembl gene update to version 55 | 13 Aug 2009
Ensembl Genes v52 | 02 Feb 2009
Added alignments of non-coding RNAs (NR_*) to RefSeq and Xeno-RefSeq tracks. | 27 Oct 2008
Ensembl gene update (version 50) | 18 Aug 2008
Ensembl genes, version 49 | 17 Apr 2008
Initial ci2 Release (using JGI v2.0, March 2005): Gap, GC Percent, Short Match, Restr. enzymes, RefSeq, Non-Ciona RefSeq, mRNAs, Spliced ESTs, C. intestinalis ESTs, Non-Ciona mRNAs, Repeat Masker, Simple Repeats. Downloads: bigZips, database. | 09 Sep 2005
C. intestinalis Dec. 2002 (JGI 1.0/ci1) (ci1, JGI v1.0)
Track/Table Name | Release Date
Added alignments of non-coding RNAs (NR_*) to RefSeq and Xeno-RefSeq tracks. | 27 Oct 2008
RefSeq Genes | 21 Mar 2005
Human Proteins (data update) | 17 Sep 2004
Initial ci1 release (using JGI v1.0): Gap, GC Percent, Non-Ciona RefSeq Genes, SNAP Genes, JGI Genes, Ciona mRNAs, Spliced ESTs, Ciona ESTs, NonCiona mRNAs, C. savignyi Blat, Human Proteins, RepeatMasker, Simple Repeats Downloads: bigZips, database | 15 Jul 2004
S. purpuratus Sep. 2006 (Baylor 2.1/strPur2) (strPur2, Baylor release 3 Spur 2.1)
Track/Table Name | Release Date
Added alignments of non-coding RNAs (NR_*) to RefSeq and Xeno-RefSeq tracks. | 27 Oct 2008
Initial strPur2 release (using Baylor release 3 Spur 2.1): gap, gold, gc5Base, quality, genscan, Human Proteins, refGene, S. purpuratus mRNAs, Spliced ESTs, Other mRNAs, Human nets and chains, Repeat Masker, Simple Repeats | 16 Oct 2007
S. purpuratus Apr. 2005 (Baylor 1.1/strPur1) (strPur1, Baylor)
Track/Table Name | Release Date
Added alignments of non-coding RNAs (NR_*) to RefSeq and Xeno-RefSeq tracks. | 27 Oct 2008
Human Proteins track (updated from hg17 to hg18) | 27 Feb 2007
Initial strPur1 release (using Baylor Spur_0.5 whole genome shotgun assembly) Assembly, gap, RepeatMasker, SimpleRepeats, GC Percent, S. purpuratus mRNAs, Other mRNAs, Genscan, Mapped Human Proteins, Quality, RefSeq. | 07 Mar 2006
Sea hare Sept. 2008 (Broad 2.0/aplCal1) (aplCal1, Broad v. Aplcal2.0)
Track/Table Name | Release Date
Initial aplCal1 release (using Broad v. Aplcal2.0): Assembly, Gap, GC Percent, Quality Scores, Short Match, Restr Enzymes, Other RefSeq, Human Proteins, Sea Hare mRNAs, Spliced ESTs, Sea Hare ESTs, Other mRNAs, CpG Islands, Human Chain/Net, RepeatMasker, Interrupted Rpts, Simple Repeats. Downloads: bzips, database, liftOver files, comparatives. | 15 Mar 2010
C. elegans May 2008 (WS190/ce6) (ce6, Washington University School of Medicine GSC and Sanger Institute WS190)
Track/Table Name | Release Date
BlastTab tables rebuild | 23 Aug 2010
liftOver file: ce6 to ce4 | 20 Apr 2010
ALG-1 Argonaute binding sites | 19 Jan 2010
Gene Sorter and UCSC Genes otherOrgs links to yeast sacCer2 | 02 Nov 2009
Ensembl Genes v52 | 29 Jan 2009
Added alignments of non-coding RNAs (NR_*) to RefSeq and Xeno-RefSeq tracks. | 27 Oct 2008
automated rebuilding of transcription start upstream fasta and MAF files based on genbank or refseq tracks. | 16 Oct 2008
Nucleosome, MNase Coverage, NSome Coverage, Adj NSome Covrg, NSome Stringency, 25mers (lifted from ce4/WS170) | 10 Oct 2008
Ensembl Genes (version 50) | 22 Aug 2008
Initial ce6 release (using Washington University School of Medicine GSC and Sanger Institute WS190): Assembly; Gap; GC Percent; Short Match; Restr Enzymes; WormBase Genes; WormBase RNAs; WormBase PseudoGenes; RefSeq Genes; non-C. elegans RefSeq Genes; C. elegans mRNAs; Spliced ESTs; C. elegans ESTs; non-C. elegans mRNAs; Chains & Nets: C. remanei, C. briggsae, C. brenneri, C. japonica, P. pacificus; RepeatMasker; Interrupted Repeats; Simple Repeats; Self Chain. Downloads: bigZips, chromosomes, database, liftOvers, comparatives. | 30 Jul 2008
C. elegans Jan. 2007 (WS170/ce4) (ce4, Washington University School of Medicine GSC and Sanger Institute WS170)
Track/Table Name | Release Date
Added alignments of non-coding RNAs (NR_*) to RefSeq and Xeno-RefSeq tracks. | 27 Oct 2008
TROMER Transcriptome database, SIB Alt-Splicing | 29 May 2008
25mers repeat annotation | 06 May 2008
Adjusted nucleosome coverage, Nucleosome Positioning Stringency from SOLiD core alignments, Coverage of nucleosome predictions from SOLiD core alignments, Micrococcal nuclease control coverage, Nucleosome predictions from SOLiD core alignments | 18 Apr 2008
Updated mouse column in Gene Sorter and in Orthologous Genes section of gene details pages to mm9 UCSC Genes | 19 Oct 2007
Initial ce4 Release (using WormBase WS170): Assembly; Gap; GC Percent; Short Match; Restr Enzymes; WormBase Genes; WormBase RNAs; WormBase PseudoGenes; RefSeq Genes; Non-C. elegans RefSeq; Human Proteins; C. elegans mRNAs; Spliced ESTs; C. elegans ESTs; Non-C. elegans mRNAs; Conservation; Most Conserved; Chains and Nets: P. pacificus, C. briggsae, C. remanei, C. brenneri; RepeatMasker; WM + SDust; Simple Repeats; Self Chain. Downloads: bigZips, chromosomes, database, liftOvers, multiz, phastCons, comparatives. | 03 Aug 2007
C. elegans Mar. 2004 (WS120/ce2) (ce2, WormBase v. WS120)
Track/Table Name | Release Date
Added alignments of non-coding RNAs (NR_*) to RefSeq and Xeno-RefSeq tracks. | 27 Oct 2008
Updated Drosophila column in Gene Sorter from dm2 to dm3 FlyBase genes | 28 Aug 2007
Update of dmBlastTab tables (to dm2) to coincide with Fly Base v4.3 Genes | 20 Apr 2007
Update of hgBlastTab tables (to hg18) to coincide with UCSC Genes | 06 Apr 2007
Rat Ortholog column of Gene Sorter and Known Gene details updated to rn4 | 20 Jul 2006
MicroRNA target sites in 3' UTRs as predicted by PicTar | 26 Apr 2006
Gene Sorter P2P Protein-to-Protein Interaction Network (worm, fly, yeast) | 14 Jun 2005
Geneid Gene Predictions | 24 Mar 2005
Conservation, Most Conserved | 17 Sep 2004
Human Proteins | 14 Sep 2004
Gene Sorter | 04 Jun 2004
WormBase Genes | 26 May 2004
Self Chain | 20 May 2004
Initial ce2 Release (using WormBase v. WS120): Assembly, Gap, GC Percent, WormBase Genes, WormBase Genefinder, RefSeq Genes, Twinscan, miRNA, Worm mRNAs, Spliced ESTs, Worm ESTs, Gene Bounds, Fugu Blat, Briggsae Waba, Briggsae Blastz, Briggsae Chain, Briggsae Net, Briggsae Aligns, RepeatMasker, Simple Repeats. Downloads: bigZips, chromosome, annotations. | 11 May 2004
C. brenneri Feb. 2008 (WUGSC 6.0.1/caePb2) (caePb2, Washington University School of Medicine GSC Caenorhabditis brenneri (PB2801) 6.0.1)
Track/Table Name | Release Date
C. elegans Chain/Net | 06 Jul 2011
Added alignments of non-coding RNAs (NR_*) to RefSeq and Xeno-RefSeq tracks. | 27 Oct 2008
C. elegans Proteins WS190 Mapped by Chained tBLASTn | 18 Aug 2008
Initial caePb2 release (using WUSTL Caenorhabditis brenneri (PB2801) 6.0.1): Scaffolds, Contigs, Gap, GC Percent, Short Match, Restr Enzymes, Non-C. brenneri RefSeq, C. brenneri mRNAs, Spliced ESTs, C. brenneri ESTs, Non-C. brenneri mRNAs, WM + SDust, Simple Repeats. Downloads: bigZips, chromsomes, database. | 20 Jun 2008
C. brenneri Jan. 2007 (WUGSC 4.0/caePb1) (caePb1, Washington University School of Medicine GSC Caenorhabditis n. sp. PB2801)
Track/Table Name | Release Date
Added alignments of non-coding RNAs (NR_*) to RefSeq and Xeno-RefSeq tracks. | 27 Oct 2008
Initial caePb1 release (using WUSTL Caenorhabditis n. sp. PB2801): Scaffolds; Contigs; Gap; GC Percent; Quality Scores; Short Match; Restr Enzymes; Non-C. brenneri RefSeq; C. elegans Proteins; Non-C. brenneri mRNAs; Chains and Nets: P. pacificus, C. briggsae, C. remanei, C. elegans; RepeatMasker; WM + SDust; Simple Repeats. Downloads: bigZips, chromsomes, database, liftOvers, comparatives. | 03 Aug 2007
C. briggsae Jan. 2007 (WUGSC 1.0/cb3) (cb3, Washington University School of Medicine GSC and Sanger Institute cb3)
Track/Table Name | Release Date
P. pacificus Chain/Net | 06 Jul 2011
C. elegans Chain/Net | 06 Jul 2011
Added alignments of non-coding RNAs (NR_*) to RefSeq and Xeno-RefSeq tracks. | 27 Oct 2008
C. elegans Proteins WS190 Mapped by Chained tBLASTn | 18 Aug 2008
Initial cb3 release (using WUSTL cb3): Assembly; Gap; GC Percent; Short Match; Restr Enzymes; Non-C. briggsae RefSeq; C. elegans Proteins; C. briggsae mRNAs; Spliced ESTs; C. briggsae ESTs; Non-C. briggsae mRNAs; Chains and Nets: P. pacificus, C. elegans, C. brenneri, C. remanei; RepeatMasker; WM + SDust; Simple Repeats. Downloads: bigZips, chromsomes, database, liftOvers, comparatives. | 03 Aug 2007
C. briggsae July 2002 (WormBase cb25.agp8/cb1) (cb1, WormBase v. cb25.agp8)
Track/Table Name | Release Date
Added alignments of non-coding RNAs (NR_*) to RefSeq and Xeno-RefSeq tracks. | 27 Oct 2008
genbank updates enabled | 29 Nov 2007
Twinscan | 03 Dec 2004
Elegans Chain (updated to ce2) | 25 May 2004
Elegans Blastz (updated to ce2) | 25 May 2004
Initial cb1 Release (using WormBase v. cb25.agp8): Assembly, Gap, GC Percent, Worm mRNAs, Worm ESTs, Elegans Chain, Elegans Blastz, RepeatMasker, Simple Repeats, data set downloads. | 24 Jun 2003
C. remanei May 2007 (WUGSC 15.0.1/caeRem3) (caeRem3, Washington University School of Medicine GSC C. remanei 15.0.1)
Track/Table Name | Release Date
C. elegans Chain/Net | 06 Jul 2011
Added alignments of non-coding RNAs (NR_*) to RefSeq and Xeno-RefSeq tracks. | 27 Oct 2008
C. elegans Proteins WS190 Mapped by Chained tBLASTn | 18 Aug 2008
Initial caeRem3 release (using WUSTL C. remanei 15.0.1): Assembly, Contigs, Gap, GC Percent, Quality Scores, Short Match, Restr Enzymes, Non-C. remanei RefSeq, C. remanei mRNAs, Spliced ESTs, C. remanei ESTs, Non-C. ramenei mRNAs, WM + SDust, Simple Repeats. Downloads: bigZips, chromsomes, database. | 20 Jun 2008
C. remanei Mar. 2006 (WUGSC 1.0/caeRem2) (caeRem2, Washington University School of Medicine GSC C. remanei 1.0)
Track/Table Name | Release Date
Added alignments of non-coding RNAs (NR_*) to RefSeq and Xeno-RefSeq tracks. | 27 Oct 2008
Initial caeRem2 release (using WUSTL C. remanei 1.0): Assembly; Contigs; Gap; GC Percent; Short Match; Restr Enzymes; Non-C. ramenei RefSeq; C. elegans Proteins; C. remanei mRNAs; Spliced ESTs; C. remanei ESTs; Non-C. ramenei mRNAs; Chains and Nets: P. pacificus, C. elegans, C. brenneri, C. briggsae; RepeatMasker; WM + SDust; Simple Repeats. Downloads: bigZips, chromosomes, database, liftOvers, comparatives. | 03 Aug 2007
C. japonica Mar. 2008 (WUGSC 3.0.2/caeJap1) (caeJap1, Washington University School of Medicine GSC C. remanei 3.0.2)
Track/Table Name | Release Date
Added alignments of non-coding RNAs (NR_*) to RefSeq and Xeno-RefSeq tracks. | 27 Oct 2008
C. elegans Proteins WS190 Mapped by Chained tBLASTn | 18 Aug 2008
Initial caeJap1 release (using Washington University School of Medicine GSC C. remanei 3.0.2): Assembly, Contigs, Gap, GC Percent, Quality Scores, Short Match, Restr Enzymes, Non-C. japonica RefSeq, Spliced ESTs, Non-C. japonica mRNAs, WM + SDust, Simple Repeats, Chains/Nets to C. elegans. Downloads: bigZips, chromsomes, database. | 27 Jun 2008
P. pacificus Feb. 2007 (WUGSC 5.0/priPac1) (priPac1, Washington University School of Medicine GSC Pristionchus pacificus 5.0)
Track/Table Name | Release Date
C. elegans Chain/Net | 06 Jul 2011
Added alignments of non-coding RNAs (NR_*) to RefSeq and Xeno-RefSeq tracks. | 27 Oct 2008
C. elegans Proteins WS190 Mapped by Chained tBLASTn | 18 Aug 2008
Initial priPac1 release (using WUSTL Pristionchus pacificus 5.0): Assembly; Contigs; Gap; GC Percent; Quality Scores; Short Match; Restr Enzymes; Non-P. pacificus RefSeq; C. elegans Proteins; P. pacificus mRNAs; Spliced ESTs; P. pacificus ESTs; Non-P. pacificus mRNAs; Chains and Nets: C. briggsae, C. remanei, C. brenneri, C. elegans; RepeatMasker; Simple Repeats. Downloads: bigZips, chromsomes, database, liftOvers, comparatives. | 03 Aug 2007
D. melanogaster Apr. 2006 (BDGP R5/dm3) (dm3, BDGP Release 5)
Track/Table Name | Release Date
Ensembl Genes v64 | 07 Nov 2011
Ensembl gene update, version 63 | 30 Sep 2011
Ensembl gene update, version 62 | 12 May 2011
Ensembl gene update, version 61 | 10 Mar 2011
BDTNP ChIP/chip | 16 Feb 2011
BDTNP DNase Accs | 16 Feb 2011
Ensembl gene update, version 59 | 23 Aug 2010
BlastTab tables rebuild | 23 Aug 2010
Gene Sorter and UCSC Genes otherOrgs links to yeast sacCer2 | 02 Nov 2009
Berkeley Drosophila Transcription Network Project Transcription Factor ChIP/chip | 20 Jul 2009
Updated to FlyBase version 5.12 annotations. | 30 Oct 2008
Transcription start upstream MAF files based on FlyBase 5.12 Genes. | 27 Oct 2008
Added alignments of non-coding RNAs (NR_*) to RefSeq and Xeno-RefSeq tracks. | 27 Oct 2008
multiz15way upstream*.maf.gz files | 27 May 2008
Gene Disruption Project P-element and Minos Insertion Locations | 27 May 2008
ORegAnno track update | 07 Nov 2007
EvoFold predictions of RNA secondary structure | 06 Nov 2007
Updated mouse column in Gene Sorter and in Orthologous Genes section of gene details pages to mm9 UCSC Genes | 19 Oct 2007
Added CONTRAST gene predictions | 17 Oct 2007
N-SCAN PASA-EST gene predictions from WUStL | 16 Oct 2007
Updated to FlyBase version 5.3 annotations. | 10 Oct 2007
Initial dm3 Regulatory elements from Open Regulatory Annotation (ORegAnno) release; updated hg18 ORegAnno track | 06 Sep 2007
Initial dm3 release (using BDGP Release 5): Chromosome Bands, Chromosome Ideogram, Assembly, Gap, BAC Endpairs, GC Percent; RefSeq Genes, Flybase Genes, FB Noncoding; D.melanogaster mRNAs, xenoMrnas, Spliced ESTs, ESTs; Conservation, MostConserved, Chains & Nets: A.gambiae, D.pseudoobscura, D.persimilis, D.ananassae, D.erecta, D.yakuba, D.sechellia, D.simulans; RepeatMasker, Simple Repeats; Downloads: bigZips, chromosomes, database, liftOvers, comparatives. | 16 Jul 2007
removed "e-rows" from the upstream MAF files | 09 Jul 2007
D. melanogaster Apr. 2004 (BDGP R4/dm2) (dm2, BDGP v. 4 / DHGP v. 3.2)
Track/Table Name | Release Date
BDTNP ChIP/chip | 16 Feb 2011
BDTNP DNase Accs | 16 Feb 2011
Berkeley Drosophila Transcription Network Project Transcription Factor ChIP/chip | 20 Jul 2009
LiftOver to: D. pseudoobscura (dp4), D. ananassae (droAna3), D. erecta (droEre2), D. grimshawi (droGri2), D. mojavensis (droMoj3), D. virilis (droVir3), D. willistoni (droWil1), D. yakuba (droYak2) | 10 Nov 2008
Added alignments of non-coding RNAs (NR_*) to RefSeq and Xeno-RefSeq tracks. | 27 Oct 2008
automated rebuilding of transcription start upstream fasta and MAF files based on genbank or refseq tracks. | 16 Oct 2008
EvoFold predictions of RNA secondary structure | 06 Nov 2007
Chromosome Bands, Chromosome Ideogram | 02 Jul 2007
ORegAnno track update | 30 Apr 2007
Updated to FlyBase release 4.3. | 20 Apr 2007
Update of hgBlastTab tables (to hg18) to coincide with UCSC Genes | 06 Apr 2007
Human Proteins | 26 Feb 2007
Affymetrix Drosophila Development Signal & Transfrags | 11 Jan 2007
Regulatory elements from Open Regulatory Annotation (ORegAnno) | 05 Jan 2007
Conservation, Most Conserved (15-way alignment) | 12 Dec 2006
Correction to CDS annotation of 36 transcripts in Fly Base Gene Track with start codon whose first base is the last base in an exon. | 26 Jul 2006
Rat Ortholog column of Gene Sorter and Known Gene details updated to rn4 | 20 Jul 2006
Human Proteins | 20 Jun 2006
Update to 4.2 FlyBase Noncoding Genes track to correct the omission of many miRNAs. | 15 Jun 2006
Added to Gene Sorter. | 22 May 2006
Updated to FlyBase release 4.2 annotations. | 22 May 2006
MicroRNA target sites in 3' UTRs as predicted by PicTar | 26 Apr 2006
D. sechellis (droSec1) Chain/Net and Lift Over (Downloads, Batch Coordinate Conversion utility) | 18 Jan 2006
D. persimilis (droPer1) Chain/Net and Lift Over (Downloads, Batch Coordinate Conversion utility) | 18 Jan 2006
D. pseudo. (dp3) Chain/Net and Lift Over (Downloads, Batch Coordinate Conversion utility) | 17 Jan 2006
A. mellifera (apiMel2) Chain/Net and Lift Over (Downloads, Batch Coordinate Conversion utility) | 17 Jan 2006
LiftOvers: droGri1, droMoj2, droAna2, droEre1, droSim1, droVir2, dp3 -> dm2 | 13 Jan 2006
DroYak1 Chain/Net - regenerated with more sensitive blastz parameters | 12 Jan 2006
DroMoj1 Chain/Net - regenerated with more sensitive blastz parameters | 12 Jan 2006
DroVir1 Chain/Net - regenerated with more sensitive blastz parameters | 12 Jan 2006
AnoGam1 Chain/Net - regenerated with more sensitive blastz parameters | 12 Jan 2006
LiftOvers: dm2 -> anoGam1, droGri1, droMoj1, droMoj2, droAna1, droAna2, droEre1, droSim1, driVir1, droVir2, droYak1, apiMel2, dp3 | 04 Jan 2006
BAC End Pairs | 10 Oct 2005
N-SCAN Gene Predictions | 07 Oct 2005
Geneid Genes | 21 Sep 2005
D. simulans (droSim1) Chain and Net | 08 Aug 2005
augustus gene predictions | 07 Jul 2005
Conservation, Most Conserved (Rebuilt from new pairwise alignments with more sensitive blastz parameters; now includes D. simulans) | 28 Jun 2005
Conservation, Most Conserved (re-release to correct omission of D. yakuba from multiple alignments) | 11 Mar 2005
FlyReg (Drosophila DNase I Footprint Database) | 04 Mar 2005
FlyBase Genes, FB Noncoding (updated FlyBase annotations from version 4.0 to 4.1) | 28 Feb 2005
Initial D. melanogaster 2 release (BDGP Rel.4 euchromatic, DHGP Rel. 3.2 heterochromatic): Gap, GC Percent, Genscan, RefSeq Genes, Flybase, FB-Noncoding, Conservation, Most-Conserved, mRNAs, xenoMrnas, Spliced ESTs, ESTs, {anoGam1, apiMel1, dp2, droAna1, droMoj1, droVir1, droYak1} Chain/Net, RepeatMasker, Simple Repeats. Downloads: bigZips, database, comparatives. | 14 Feb 2005
D. melanogaster Jan. 2003 (BDGP R3/dm1) (dm1, BDGP v. 3)
Track/Table Name | Release Date
Added alignments of non-coding RNAs (NR_*) to RefSeq and Xeno-RefSeq tracks. | 27 Oct 2008
Gene Sorter P2P Protein-to-Protein Interaction Network (worm, fly, yeast) | 14 Jun 2005
Restriction Enzyme mapping (REbase release 505). | 24 May 2005
FlyBase Non-coding (removed extensions) | 07 Jan 2005
FlyBase Genes (removed extensions) | 07 Jan 2005
FlyReg | 23 Dec 2004
Twinscan | 21 Dec 2004
Conservation (chrUn-based dp1 replaced with scaffold-based dp2 for D. pseudoobscura sequence; rescored with latest phastCons) | 01 Oct 2004
Incremental update to BDGP Insertions. | 27 Sep 2004
Human Proteins | 14 Sep 2004
D. pseudoobscura Chain, Net (updated to dp2) | 01 Sep 2004
BDGP Insertions (P element insertion locations from the BDGP Gene Disruption Project) | 27 Aug 2004
D. yakuba Chain/Net | 12 Aug 2004
Anopheles Chain and Net | 12 Aug 2004
Conservation (D. yakuba, D. pseudoob., A. gambiae) | 11 Aug 2004
Gene Sorter | 01 Jul 2004
BDGP Non-coding | 30 Jun 2004
Chromosome Bands (Cytology) from Flybase | 30 Jun 2004
BDGP Genes | 30 Jun 2004
miRNA (updated) | 05 May 2004
Anopheles Ecores | 17 Nov 2003
Initial dm1 Release (using BDGP V3.1): Gap, GC Percent, RefSeq Genes, BDGP Genes, BDGP Non-coding, Genscan Genes, Fruitfly mRNAs, Spliced ESTs, Fruitfly ESTs, Fugu Blat, D. pseud. Chain, D. pseud. Net, D. pseud Aligns, RepeatMasker, Simple Repeats. Downloads: bigZips, database | 30 Oct 2003
D. simulans Apr. 2005 (WUGSC mosaic 1.0/droSim1) (droSim1, WUSTL version 1.0)
Track/Table Name | Release Date
Added alignments of non-coding RNAs (NR_*) to RefSeq and Xeno-RefSeq tracks. | 27 Oct 2008
LiftOvers: droGri1, droMoj2, droAna2, droEre1, droSim1, droVir2, dp3 -> dm2 | 13 Jan 2006
Geneid Genes | 21 Sep 2005
D.mel. Proteins (data update to dm2) | 27 Jul 2005
Initial Drosophila simulans release (droSim1; Release 1.0 Apr. 2005 from WUSTL): Assembly, Gap, GC Percent, Short Match, Restr. enzymes, RepeatMasker, Simple Repeats, Non D. sim. RefSeq, Genscan Genes, D. sim mRnas, D. sim Spliced ESTs, D. sim ESTs, Non D. sim. mRnas, D. mel Proteins, D. mel Chain, D. mel Net. | 10 Jun 2005
D. sechellia Oct. 2005 (Broad/droSec1) (droSec1, Broad 28 Oct. 2005)
Track/Table Name | Release Date
Added alignments of non-coding RNAs (NR_*) to RefSeq and Xeno-RefSeq tracks. | 27 Oct 2008
Initial droSec1 Release (using Broad Institute): supporting tables, Assembly, GC Percent, Gap, Simple Repeats, RepeatMasker, D. melanogaster (dm2) chain/net, Genscan, Mapped Fly Proteins, support for Genbank, Other mRNAs, Other RefSeq Downloads: bigZips, database, liftOver, vsDm2 | 18 Jan 2006
D. yakuba Nov. 2005 (WUGSC 7.1/droYak2) (droYak2, WUSTL version 2.0)
Track/Table Name | Release Date
Added alignments of non-coding RNAs (NR_*) to RefSeq and Xeno-RefSeq tracks. | 27 Oct 2008
Initial Drosophila yakuba Release (droYak2, Nov. 2005 using WUSTL): Assembly, Gap, GC Percent, Contamination, Short Match, Restr Enzymes, Other RefSeq, Genscan Genes, D. yakuba mRNAs, D. yakuba ESTs, Spliced Ests, Other mRNAs, D. melanogaster Proteins/Chain/Net, RepeatMasker, Simple Repeats. Downloads: bigZips, chromosomes, database, liftOver, vsDm2. | 11 Jan 2006
D. yakuba Apr. 2004 (WUGSC 1.0/droYak1) (droYak1, WUSTL version 1.0)
Track/Table Name | Release Date
Added alignments of non-coding RNAs (NR_*) to RefSeq and Xeno-RefSeq tracks. | 27 Oct 2008
D. melanogaster Chain/Net/LiftOver (dm2 update) | 17 Jan 2006
Geneid Genes | 21 Sep 2005
D.mel. Proteins (data update to dm2) | 27 Jul 2005
Fly (dm1) Proteins (data update) | 16 Sep 2004
D. mel. Proteins (chained tblastn alignments of D. melanogaster proteins) | 21 Aug 2004
GC Percent | 26 Jul 2004
Initial D. yakuba Release (version 1) - Assembly, Gap, Genscan Genes, D. yakuba mRNAs, Spliced ESTs, D. yakuba ESTs, Non-D. yakuba mRNAs, D. mel. Chain, D. mel. Net, RepeatMasker, Simple Repeats | 23 Jul 2004
D. erecta Aug. 2005 (Agencourt prelim/droEre1) (droEre1, Agencourt 1 Aug 2005)
Track/Table Name | Release Date
Added alignments of non-coding RNAs (NR_*) to RefSeq and Xeno-RefSeq tracks. | 27 Oct 2008
Reloaded Gap and loaded Assembly from assembly.links files included with the assemblies. Previously, Gap was deduced from runs of N's in the sequence. | 25 Jan 2006
LiftOvers: droGri1, droMoj2, droAna2, droEre1, droSim1, droVir2, dp3 -> dm2 | 13 Jan 2006
Drosophila erecta (droEre1, August 2005) Initial Release: Gap, Short Match, Restr. enzymes, RepeatMasker, Simple Repeats, GC Percent, D. ere. mRNAs, Non-D. ere. mRNAs, Non-D. ere. RefSeq, Genscan Genes, D. mel. (dm2) Chain/Net, D.mel. (dm2) Proteins. Downloads: bigZips, database, vsDm2. | 20 Sep 2005
D. ananassae Aug. 2005 (Agencourt prelim/droAna2) (droAna2, Agencourt 1 August 2005)
Track/Table Name | Release Date
Added alignments of non-coding RNAs (NR_*) to RefSeq and Xeno-RefSeq tracks. | 27 Oct 2008
Reloaded Gap and loaded Assembly from assembly.links files included with the assemblies. Previously, Gap was deduced from runs of N's in the sequence. | 25 Jan 2006
LiftOvers: droGri1, droMoj2, droAna2, droEre1, droSim1, droVir2, dp3 -> dm2 | 13 Jan 2006
Drosophila ananassae (Agencourt Bioscience Corporation, August 2005) Initial Release -- Gap, GC Percent, Other Refseq, Genscan, D. anan. mRNA, Other mRNAs, D. mel. proteins, D. mel. Chain/Net, RepeatMasker, Simple Repeats. Downloads: bigZips, database, vsDm2. | 07 Oct 2005
D. ananassae July 2004 (TIGR/droAna1) (droAna1, TIGR 15 July 2004)
Track/Table Name | Release Date
Added alignments of non-coding RNAs (NR_*) to RefSeq and Xeno-RefSeq tracks. | 27 Oct 2008
D. melanogaster Chain/Net/LiftOver (dm2 update) | 17 Jan 2006
Geneid Genes | 21 Sep 2005
D.mel. Proteins (data update to dm2) | 27 Jul 2005
Genscan (removed extensions) | 07 Jan 2005
D. ananassae Browser Initial Release (TIGR 15 July 2004): Gap, GC Percent, Non-D.anan. Refseq, Genscan, D.anan. mRNA, Non D.anan. mRNAs, D. mel. proteins, D. mel. Chain/Net, RepeatMasker, Simple Repeats. Downloads bigZips, database, vsDm1. | 15 Dec 2004
D. pseudoobscura Nov. 2004 (FlyBase 1.03/dp3) (dp3, FlyBase Release 1.03)
Track/Table Name | Release Date
Added alignments of non-coding RNAs (NR_*) to RefSeq and Xeno-RefSeq tracks. | 27 Oct 2008
LiftOvers: droGri1, droMoj2, droAna2, droEre1, droSim1, droVir2, dp3 -> dm2 | 13 Jan 2006
Geneid Genes | 21 Sep 2005
D.mel. Proteins (data update to dm2) | 27 Jul 2005
D. pseudoobscura Initial Release (dp3, based on FlyBase Release 1.03 November 2004): Gap, GC Percent, Short Match, Restr. enzymes, FlyBase, Non-D.pseudo. RefSeq, Twinscan, Genewise, Genscan Genes, D.pseudo. mRNAs, Spliced ESTs, D.pseudo. ESTs, Non-D.pseudo. mRNAs, D.mel. Proteins (dm1), D.mel Chain/Net (dm2), Repeat Masker, Simple Repeats, Downloads: bigZips, database, vsDm2. | 24 Jun 2005
D. pseudoobscura Aug. 2003 (Baylor freeze1/dp2) (dp2, Baylor HGSC Freeze 1)
Track/Table Name | Release Date
Added alignments of non-coding RNAs (NR_*) to RefSeq and Xeno-RefSeq tracks. | 27 Oct 2008
Genscan (removed extensions) | 07 Jan 2005
Initial dp2 release (Baylor freeze 1 August 2003): GC Percent, Xeno RefSeq, Twinscan Genes, Genscan Genes, mRNAs, Xeno mRNAs, D. melanogaster, proteins, D. mel. Chain, D. mel. Net, RepeatMasker, Simple Repeats. Downloads: bigZips, chromosomes, database | 01 Sep 2004
D. persimilis Oct. 2005 (Broad/droPer1) (droPer1, Broad 28 Oct. 2005)
Track/Table Name | Release Date
Added alignments of non-coding RNAs (NR_*) to RefSeq and Xeno-RefSeq tracks. | 27 Oct 2008
Initial droPer1 Release (using Broad Institute): supporting tables, Assembly, GC Percent, Gap, Simple Repeats, RepeatMasker, D. melanogaster (dm2) chain/net, Genscan, Mapped Fly Proteins, support for Genbank, Other mRNAs, Other RefSeq. Downloads: bigZips, database, liftOver, vsDm2. | 06 Jan 2006
D. virilis Aug. 2005 (Agencourt prelim/droVir2) (droVir2, Agencourt 1 August 2005)
Track/Table Name | Release Date
Added alignments of non-coding RNAs (NR_*) to RefSeq and Xeno-RefSeq tracks. | 27 Oct 2008
Reloaded Gap and loaded Assembly from assembly.links files included with the assemblies. Previously, Gap was deduced from runs of N's in the sequence. | 25 Jan 2006
LiftOvers: droGri1, droMoj2, droAna2, droEre1, droSim1, droVir2, dp3 -> dm2 | 13 Jan 2006
Drosophila virilis (droVir2, Month 2005) Initial Release: Gap, Short Match, Restr. enzymes, RepeatMasker, Simple Repeats, GC Percent, D. vir. ESTs, Spliced Ests, D. vir. mRNAs, Non-D. vir. mRNAs, Non-D. vir. RefSeq, Genscan Genes, D. mel. (dm2) Chain/Net, D.mel. (dm2) Proteins. Downloads: bigZips, database, vsDm2. | 20 Sep 2005
D. virilis July 2004 (Agencourt prelim/droVir1) (droVir1, Agencourt 12 July 2004)
Track/Table Name | Release Date
Added alignments of non-coding RNAs (NR_*) to RefSeq and Xeno-RefSeq tracks. | 27 Oct 2008
D. melanogaster Chain/Net/LiftOver (dm2 update) | 17 Jan 2006
Geneid Genes | 21 Sep 2005
D.mel. Proteins (data update to dm2) | 27 Jul 2005
Genscan (removed extensions) | 07 Jan 2005
D. virilis Browser Initial Release (Agencourt 12 July 2004): Gap, GC Percent, Non-D. vir. Refseq, Genscan, D. vir. mRNA, Non-D. vir. mRNA, D. mel. proteins, D. mel. Chain/Net, RepeatMasker, Simple Repeats | 15 Dec 2004
D. mojavensis Aug. 2005 (Agencourt prelim/droMoj2) (droMoj2, Agencourt 1 August 2005)
Track/Table Name | Release Date
LiftOver: droMoj2 <--> droMoj3 | 13 Apr 2009
Added alignments of non-coding RNAs (NR_*) to RefSeq and Xeno-RefSeq tracks. | 27 Oct 2008
Reloaded Gap and loaded Assembly from assembly.links files included with the assemblies. Previously, Gap was deduced from runs of N's in the sequence. | 25 Jan 2006
LiftOvers: droGri1, droMoj2, droAna2, droEre1, droSim1, droVir2, dp3 -> dm2 | 13 Jan 2006
Drosophila mojavensis (droMoj2, August 2005) Initial Release: Gap, Short Match, Restr. enzymes, RepeatMasker, Simple Repeats, GC Percent, D. moj. mRNAs, Non-D. moj. mRNAs, Non-D. moj. RefSeq, Genscan Genes, D. mel. (dm2) Chain/Net, D.mel. (dm2) Proteins. Downloads: bigZips, database, vsDm2. | 20 Sep 2005
D. mojavensis Aug. 2004 (Agencourt prelim/droMoj1) (droMoj1, Agencourt 11 Aug 2004)
Track/Table Name | Release Date
Added alignments of non-coding RNAs (NR_*) to RefSeq and Xeno-RefSeq tracks. | 27 Oct 2008
D. melanogaster Chain/Net/LiftOver (dm2 update) | 17 Jan 2006
Geneid Genes | 21 Sep 2005
D.mel. Proteins (data update to dm2) | 27 Jul 2005
Genscan (removed extensions) | 07 Jan 2005
D. mojavensis Browser Initial Release (Agencourt 11 Aug 2004): Gap, GC Percent, Non-D.moj. Refseq, Genscan, D.moj. mRNA, Non D.moj. mRNAs, D. mel. proteins, D. mel. Chain/Net, RepeatMasker, Simple Repeats | 15 Dec 2004
D. grimshawi Aug. 2005 (Agencourt prelim/droGri1) (droGri1, Agencourt 1 Aug 2005)
Track/Table Name | Release Date
Added alignments of non-coding RNAs (NR_*) to RefSeq and Xeno-RefSeq tracks. | 27 Oct 2008
Reloaded Gap and loaded Assembly from assembly.links files included with the assemblies. Previously, Gap was deduced from runs of N's in the sequence. | 25 Jan 2006
LiftOvers: droGri1, droMoj2, droAna2, droEre1, droSim1, droVir2, dp3 -> dm2 | 13 Jan 2006
Drosophila grimshawi (droGri1, August 2005) Initial Release: Gap, GC Percent, Short Match, Restr. enzymes, Other RefSeq, Genscan Genes, Other mRNAs, D. melanogaster (dm2) Proteins, D. melanogaster (dm2) Chain/Net, RepeatMasker, Simple Repeats. Downloads: bigZips, database, vsDm2. | 11 Oct 2005
A. gambiae Feb. 2003 (IAGEC MOZ2/anoGam1) (anoGam1, IAGEC v.MOZ2)
Track/Table Name | Release Date
D. melanogaster Chain/Net/LiftOver (dm2 update) | 17 Jan 2006
Geneid Genes | 21 Sep 2005
D.mel. Proteins (data update to dm2) | 27 Jul 2005
AnoEST Unique and Non-Unique (TCLAG*: Clustered A. gambiae ESTs) | 08 Jun 2005
Genscan (removed extensions) | 07 Jan 2005
GC Percent | 22 Oct 2004
Fly (dm1) Proteins (data update) | 16 Sep 2004
D. mel. Proteins (chained tblastn alignments of D. melanogaster proteins) | 21 Aug 2004
Initial anoGam1 release (MOZ2 draft genome sequence Feb. 2003): Assembly, Gap, Ensembl Genes, Genscan Genes, A. gambiae mRNAs, Spliced ESTs, A. gambiae ESTs, Non-A. gambiae mRNAs, Non-A.gambiae ESTs, D. mel Chain, D. mel. Net, RepeatMasker, Simple Repeats Downloads: bigZips, chromosomes, database | 10 Aug 2004
A. mellifera Jan. 2005 (Baylor 2.0/apiMel2) (apiMel2, Baylor HGSC Amel_2.0)
Track/Table Name | Release Date
update to existing dm2 chains and nets | 02 Nov 2006
D. melanogaster LiftOver (dm2) | 17 Jan 2006
D.mel. Proteins (data update to dm2) | 27 Jul 2005
NCBI Genes (update from NCBI: alternate gene names) | 01 Jun 2005
EMBL Homologs to D. melanogaster | 31 May 2005
NCBI Genes | 19 May 2005
Ensembl Genes | 21 Apr 2005
Human(hg17) proteins mapped by chained tBLASTn | 28 Mar 2005
D. melanogaster Proteins | 28 Feb 2005
Assembly Scaffolds | 28 Feb 2005
A. mellifera (Honeybee) Browser Jan. 2005 Release (apiMel2, Baylor HGSC Amel_2.0): Assembly, Gap, GC Percent, Genscan, A. mellifera mRNAs, Non-A. mellifera mRNAs, A. mellifera Spliced ESTs, A. mellifera ESTs, D. melanogaser Chain/Net, RepeatMasker, Simple Repeats. Downloads: bigZips, database, vsDm2. | 23 Feb 2005
A. mellifera July 2004 (Baylor 1.2/apiMel1) (apiMel1, Baylor HGSC Amel_1.2)
Track/Table Name | Release Date
D. melanogaster Chain/Net/LiftOver (dm2 update) | 17 Jan 2006
Genscan (removed extensions) | 07 Jan 2005
Honeybee Browser Initial Release (Baylor HGSC Amel_1.2): Assembly, Gap, GC Percent, Genscan, Honeybee mRNA, Spliced ESTs, Honeybee ESTs, Mapped D.melanogaster Proteins, D. melanogaser Chain/Net, RepeatMasker, Simple Repeats | 22 Dec 2004
S. cerevisiae Apr. 2011 (SacCer_Apr2011/sacCer3) (sacCer3, Saccharomyces cerevisiae S288c assembly from Saccharomyces Genome Database (GCA_000146055.2))
Track/Table Name | Release Date
LiftOver from sacCer3 to sacCer2 and sacCer1 | 09 Nov 2011
Ensembl Genes v64 | 07 Nov 2011
Initial sacCer3 release (using Saccharomyces cerevisiae S288c assembly from Saccharomyces Genome Database (GCA_000146055.2)): Base Position, Assembly, Gap, WashU Clones, GC Percent, Short Match, Restr Enzymes,SGD Genes, SGD Other, Ensembl Genes, Human Proteins, S. cer. mRNAs, Spliced ESTs, S. cer. ESTs, Regulatory Code, Reg. ChIP-chip, Reg. Module, ORegAnno, Conservation, Most Conserved, Simple Repeats. | 07 Oct 2011
S. cerevisiae June 2008 (SGD/sacCer2) (sacCer2, SGD June 2008)
Track/Table Name | Release Date
Ensembl gene update, version 62 | 12 May 2011
Ensembl gene update, version 61 | 10 Mar 2011
Ensembl gene update, version 59 | 23 Aug 2010
BlastTab tables rebuild | 23 Aug 2010
Ensembl gene update, version 58 | 21 Jun 2010
Ensembl gene update, version 57 | 20 Apr 2010
UW Footprints (updated to a composite track) | 07 Dec 2009
sgdGene.upstream1000.fa.gz sgdGene.upstream5000.fa.gz sgdGene.upstream2000.fa.gz | 03 Dec 2009
Initial S. cerevisiae Release (based on sequence in SGD as of June 2008): Assembly, Gap, WashU Clones, GC Percent, Ensembl Genes, SGD Genes, SGD Other, Human Proteins, Yeast mRNAs, Spliced ESTs, Yeast ESTs, Regulatory Code, Reg. CHIP/CHIP, Regulatory Module, ORegAnno, Simple Repeats, Conservation (S. paradoxus; S. mikatae; S. kudriavzevii; S. bayanus; S. castelli; S. kluyveri), Most Conserved. Downloads: bigZips, chromosomes, liftOver, conservation, database. | 11 Aug 2009
UW Protein/DNA Interaction Footprints Tracks | 24 Apr 2009
S. cerevisiae Oct. 2003 (SGD/sacCer1) (sacCer1, SGD sequence data as of 1 Oct. 2003)
Track/Table Name | Release Date
UW Footprints (updated to a composite track) | 07 Dec 2009
UW Protein/DNA Interaction Footprints Tracks | 24 Apr 2009
Ensembl Genes v52 | 29 Jan 2009
Ensembl gene update (version 50) | 19 Aug 2008
Ensembl genes, version 49 | 17 Apr 2008
Regulatory elements from Open Regulatory Annotation (ORegAnno) | 16 Nov 2007
Updated mouse column in Gene Sorter and in Orthologous Genes section of gene details pages to mm9 UCSC Genes | 19 Oct 2007
Updated Drosophila column in Gene Sorter from dm2 to dm3 FlyBase genes | 28 Aug 2007
Update of dmBlastTab tables (to dm2) to coincide with Fly Base v4.3 Genes | 20 Apr 2007
Update of hgBlastTab tables (to hg18) to coincide with UCSC Genes | 06 Apr 2007
Rat Ortholog column of Gene Sorter and Known Gene details updated to rn4 | 20 Jul 2006
Gene Sorter P2P Protein-to-Protein Interaction Network (worm, fly, yeast) | 14 Jun 2005
Known Genes -- UCSC SAM-T02 protein structure analysis and prediction. | 10 Jan 2005
Regulatory Code and Reg. CHIP/CHIP | 17 Dec 2004
Conservation (data update), Most Conserved (data update) | 28 Sep 2004
Gene Sorter: Regulatory Module column | 24 Sep 2004
Regulatory Module (first public release of Eran Segal's regulatory module track.) | 24 Sep 2004
Human Proteins | 14 Sep 2004
Conservation, Most Conserved | 10 Sep 2004
Initial sacCer1 Release (based on sequence in SGD as of 1 Oct 2003): WashU Clones, GC Percent, SGD Genes, SGD Other, Yeast ESTs, Spliced ESTs, Yeast ESTs, Multiz Yeast, Simple Repeats. Downloads: bigZips, database. | 14 Jan 2004