Track and Table Releases
  This page contains track and table release information for the following genome assemblies:

For more information about the tracks and tables listed on this page, refer to the User's Guide.

Last updated 22 Oct 2014. Inquiries and feedback welcome.


10 Latest Changes (all assemblies)
 
Track/Table Name Assembly Release Date
Common SNPs(141), Flagged SNPs(141), All SNPS(141) initial release hg19 20 Oct 2014
Common SNPs(141), Flagged SNPs(141), Mult. SNPs(141), All SNPS(141) initial release hg38 20 Oct 2014
Duplications of >1000 Bases of Non-RepeatMasked Sequence hg38 15 Oct 2014
Horse QTL equCab2 13 Oct 2014
GENCODE V20 / Ensembl 76 release for GRCh38 hg38 13 Oct 2014
Denisova and Neandertal Reconstructed DNA Methylation Maps hg19 18 Sep 2014
Ensembl Gene Predictions - Ensembl 76 papAnu2 21 Aug 2014
Centromere Locations hg38 18 Aug 2014
Human (hg38) 7-way conservation hg38 11 Aug 2014
Chromosome Band hg38 07 Aug 2014

Human Dec. 2013 (GRCh38/hg38) (hg38, GRCh38 Genome Reference Consortium Human Reference 38 (GCA_000001405.2))
 
Track/Table Name Release Date
Common SNPs(141), Flagged SNPs(141), Mult. SNPs(141), All SNPS(141) initial release 20 Oct 2014
Duplications of >1000 Bases of Non-RepeatMasked Sequence 15 Oct 2014
GENCODE V20 / Ensembl 76 release for GRCh38 13 Oct 2014
Centromere Locations 18 Aug 2014
Human (hg38) 7-way conservation 11 Aug 2014
Chromosome Band 07 Aug 2014
Locus Reference Genome (LRG) Regions and Transcripts 21 Jul 2014
GRC Incident Database 01 Jul 2014
OMIM Genes 23 Jun 2014
GeneReviews 19 May 2014
UCSC Genes 16 May 2014
Initial hg38 release (using GRCh38 Genome Reference Consortium Human Reference 38 (GCA_000001405.2)): Assembly, Hg19 Diff, Alt Map, Gap, GC Percent, GRC Contigs, INSDC, Scaffolds, RefSeq Genes, GENCODE Genes V19, Genscan Genes, MGC Genes, ORFeome Clones, Other RefSeq, Human mRNAs, Spliced ESTs, Human ESTs, Other ESTs, Other mRNAs, CpG Islands, Dog Chain/Net, Mouse Chain/Net, Primate Chain/Net, Self Chain, RepeatMasker, Interrupted Repeats, Simple Repeats, WM + SDust 06 Mar 2014

Human Feb. 2009 (GRCh37/hg19) (hg19, GRCh37 Genome Reference Consortium Human Reference 37 (GCA_000001405.1))
 
Track/Table Name Release Date
Common SNPs(141), Flagged SNPs(141), All SNPS(141) initial release 20 Oct 2014
Denisova and Neandertal Reconstructed DNA Methylation Maps 18 Sep 2014
Shrew Chain/Net 14 Jul 2014
Pika Chain/Net 14 Jul 2014
Zebra finch Chain/Net 08 May 2014
Hedgehog Chain/Net 08 May 2014
Chinese hamster Chain/Net 08 May 2014
EVS Variants (initial push) 07 May 2014
Vertebrate Multiz Alignment & Conservation (100 Species) 01 May 2014
Common SNPs(138), Flagged SNPs(138), Mult. SNPs(138), All SNPS(138) rebuilt with updated files from dbSNP 24 Apr 2014
Genome State Segmentations from ENCODE 17 Apr 2014
Cat Chain/Net 03 Apr 2014
Ensembl Genes v75 01 Apr 2014
GAD: Genetic Association Studies of Complex Diseases and Disorders (update) 18 Feb 2014
ENCODE Regulation: Txn Factor ChIP Clusters (update to 161 TF targets, from uniform processing of June 2012 freeze) 24 Jan 2014
pubsBingBlat (a run of hg19-BLAT against all webpages on the internet indexed by bing.com) 23 Jan 2014
GENCODE V19 release 15 Jan 2014
Ensembl genes v74 23 Dec 2013
Locus Reference Genome (LRG) Regions and Transcripts 17 Dec 2013
UCSF Brain DNA Methylation 10 Dec 2013
Vertebrate Multiz Alignment & Conservation (100 Species) 21 Nov 2013
phastBias gBGC - regions predicted to be influenced by GC-biased gene conversion 08 Nov 2013
Common SNPs(138), Flagged SNPs(138), Mult. SNPs(138), All SNPS(138) 24 Oct 2013
Ensembl Genes v73 22 Oct 2013
Ensembl Genes v73 22 Oct 2013
American alligator Chain/Net 22 Oct 2013
ClinVar Variants 14 Oct 2013
DGV - data update (v11) 11 Oct 2013
Alpaca Chain/Net 13 Sep 2013
Accession name at the INSDC - International Nucleotide Sequence Database Collaboration 10 Sep 2013
SNPs(135/137): Corrected some allele frequencies that had been tallied incorrectly due to strand error. 05 Sep 2013
Sheep Chain/Net 04 Sep 2013
Tenrec Chain/Net 29 Aug 2013
Retroposed Genes for hg19, Build 5.0 Retroposed Genes for mm10, Build 2.0 22 Aug 2013
Uniprot amino acid variants 16 Aug 2013
hgmd 15 Aug 2013
Ensembl Genes v72 12 Aug 2013
GENCODE Version 17 release 05 Aug 2013
Genome Variants: 1000 Genomes tracks updated; several new tracks added 01 Jul 2013
Chimp Chain/Net 21 Jun 2013
Ensembl Genes v71 11 Jun 2013
Wikipedia links on UCSC Genes 05 Jun 2013
Gibbon Chain/Net 29 May 2013
GWAS Catalog (update) 17 May 2013
Transcription Factor ChIP-seq Uniform Peaks from ENCODE/Analysis 10 May 2013
Ensembl Genes v70 01 May 2013
Database of Genomic Variants: Structural Variation (CNV, Inversion, In/del) (data update) 14 Feb 2013
Modern Derived dhcHumDerDenAnc 11 Feb 2013
Variants called from high-coverage sequence of 11 modern humans 11 Feb 2013
Variants called from high-coverage Denisova Sequence 11 Feb 2013
Denisova High-coverage Sequence Reads 11 Feb 2013
NHGRI Catalog of Published Genome-Wide Association Studies, GWAS (data update) 07 Feb 2013
Dog Chain/Net 31 Jan 2013
qPCR Primers 29 Jan 2013
Pfam Domains in UCSC Genes 29 Jan 2013
ENCODE Regulation: DNase Clusters (update to 125 cell types using ENCODE uniform peaks from Jan 2011 freeze) 25 Jan 2013
White rhinoceros Chain/Net 24 Jan 2013
DNaseI Hypersensitivity Uniform Peaks from ENCODE/Analysis 22 Jan 2013
ISCA 18 Jan 2013
Coriell Cell Line Copy Number Variants 17 Jan 2013
GENCODE Version 14 release 17 Jan 2013
Affymetrix CytoScan HD Array track in SNP/CNV Arrays composite track 16 Jan 2013
NHGRI Catalog of Published Genome-Wide Association Studies, GWAS (data update) 14 Jan 2013
DECIPHER: Chromosomal Imbalance and Phenotype in Humans 11 Jan 2013
GRCh37 patch10 alternate sequences, haplotypes and reference sequence patches 10 Jan 2013
Lamprey Chain/Net 08 Jan 2013
Common SNPs(137), Flagged SNPs(137), Mult. SNPs(137), All SNPS(137) 07 Dec 2012
Tenrec Chain/Net 06 Dec 2012
Rhesus Chain/Net 03 Dec 2012
1000 Genomes Phase 1 Paired-end Accessible Regions 30 Nov 2012
1000 Genomes Phase 1 Integrated Variant Calls: SNVs, InDels, SVs 30 Nov 2012
NHGRI Catalog of Published Genome-Wide Association Studies, GWAS (data update) 28 Nov 2012
Long RNA-seq from ENCODE/Cold Spring Harbor Lab (Release 3) 26 Sep 2012
Open Chromatin by FAIRE from ENCODE/OpenChrom(UNC Chapel Hill) (Release 2) 19 Sep 2012
Proteogenomics Hg19 and GENCODE Mapping from ENCODE/Univ. North Carolina/Boise State Univ. 11 Sep 2012
Transcription Factor Binding Sites by ChIP-seq from ENCODE/HAIB (Release 3) 10 Sep 2012
Open Chromatin by DNaseI HS from ENCODE/OpenChrom(Duke University) (Release 3) 28 Aug 2012
Open Chromatin TFBS by ChIP-seq from ENCODE/Open Chrom(UT Austin) (Release 2) 27 Aug 2012
NHGRI Catalog of Published Genome-Wide Association Studies, GWAS (data update) 24 Aug 2012
Transcription Factor Binding Sites by ChIP-seq from ENCODE/Stanford/Yale/USC/Harvard (Release 3) 20 Aug 2012
Medium ground finch Chain/Net 17 Aug 2012
RNA Sub-cellular Localization by Paired-end diTag Sequencing from ENCODE/GIS (Release 2) 14 Aug 2012
RNA-seq from ENCODE/Caltech (Release 4) 08 Aug 2012
Histone Modifications by ChIP-seq from ENCODE/Broad Institute (Release 3) 06 Aug 2012
DNaseI Digital Genomic Footprinting from ENCODE/University of Washington (Release 4) 06 Aug 2012
GRCh37 patch9 alternate sequences, haplotypes and reference sequence patches 01 Aug 2012
Affymetrix Exon Array from ENCODE/University of Washington (Release 4) 31 Jul 2012
Replication Timing by Repli-chip from ENCODE/FSU (Release 2) 31 Jul 2012
DNA Methylation by Reduced Representation Bisulfite Seq from ENCODE/HudsonAlpha (Release 3) 30 Jul 2012
RNA Subcellular CAGE Localization from ENCODE/RIKEN (Release 4) 30 Jul 2012
Histone Modifications by ChIP-seq from ENCODE/University of Washington (Release 5) 24 Jul 2012
DNaseI Hypersensitivity by Digital DNaseI from ENCODE/University of Washington (Release 6) 23 Jul 2012
Proteogenomics Hg19 Mapping from ENCODE/Univ. North Carolina/Boise State Univ. (Release 2) 18 Jul 2012
Affymetrix Exon Array from ENCODE/University of Washington (Release 3) 12 Jul 2012
Transcription Levels Assayed by RNA-seq on 9 Cell Lines from ENCODE 10 Jul 2012
Small RNA-seq from ENCODE/Cold Spring Harbor Lab (Release 3) 09 Jul 2012
Chromatin Interactions by 5C from ENCODE/Dekker Univ. Mass. (Release 2) 09 Jul 2012
NHGRI Catalog of Published Genome-Wide Association Studies, GWAS (data update) 27 Jun 2012
IKMC Genes Mapped (update) 22 Jun 2012
Long RNA-seq from ENCODE/Cold Spring Harbor Lab (Release 2) 21 Jun 2012
Gene Annotations from ENCODE/GENCODE Version 12 21 Jun 2012
Histone Modifications by ChIP-seq from ENCODE/Stanford/Yale/USC/Harvard (Release 3) 15 Jun 2012
DNaseI Hypersensitivity by Digital DNaseI from ENCODE/University of Washington (Release 5) 12 Jun 2012
Cow Chain/Net 11 Jun 2012
ISCA update 05 Jun 2012
Chromatin Interaction Analysis Paired-End Tags (ChIA-PET) from ENCODE/GIS-Ruan 24 May 2012
Transcription Factor Binding Sites by ChIP-seq from ENCODE/Stanford/Yale/USC/Harvard (Release 2) 14 May 2012
deCODE Recombination maps, 10Kb bin size, October 2010 09 May 2012
RNA Subcellular CAGE Localization from ENCODE/RIKEN (Release 3) 02 May 2012
NHGRI Catalog of Published Genome-Wide Association Studies, GWAS (data update) 01 May 2012
RNA-seq from ENCODE/Caltech (Release 3) 19 Apr 2012
Replication Timing by Repli-chip from ENCODE/FSU 18 Apr 2012
GRC Incident 17 Apr 2012
Histone Modifications by ChIP-seq from ENCODE/University of Washington (Release 4) 11 Apr 2012
ISCA update 10 Apr 2012
Affymetrix Exon Array from ENCODE/Duke (Release 3) 04 Apr 2012
Open Chromatin by DNaseI HS from ENCODE/OpenChrom(Duke University) (Release 2) 28 Mar 2012
ENCODE Pilot (regions lifted from hg18) 26 Mar 2012
Chromatin Interactions by 5C from ENCODE/Dekker Univ. Mass. 22 Mar 2012
Gene Annotations from ENCODE/GENCODE Version 11 08 Mar 2012
GeneReviews (update) 07 Mar 2012
Histone Modifications by ChIP-seq from ENCODE/Broad Institute (Release 2) 06 Mar 2012
DNaseI Hypersensitivity by Digital DNaseI from ENCODE/University of Washington (Release 4) 06 Mar 2012
Transcription Factor Binding Sites by ChIP-seq from ENCODE/HAIB (Release 2) 29 Feb 2012
CTCF Binding Sites by ChIP-seq from ENCODE/University of Washington (Release 3) 29 Feb 2012
ISCA Composite Pathogenic Cumulative subtracks (Pathogenic Gain/Loss) 28 Feb 2012
RNA-seq from ENCODE/HAIB 23 Feb 2012
Gene Annotations from ENCODE/GENCODE Version 10 22 Feb 2012
Small RNA-seq from ENCODE/Cold Spring Harbor Lab (Release 2) 22 Feb 2012
Histone Modifications by ChIP-seq from ENCODE/University of Washington (Release 3) 16 Feb 2012
Replication Timing by Repli-seq from ENCODE/University of Washington 14 Feb 2012
DNaseI Digital Genomic Footprinting from ENCODE/University of Washington (Release 3) 13 Feb 2012
DNaseI/FAIRE/ChIP Synthesis from ENCODE/OpenChrom(Duke/UNC/UTA) (Release 2) 10 Feb 2012
NHGRI Catalog of Published Genome-Wide Association Studies, GWAS (data update; hg19 now uses dbSNP build 135 mappings) 07 Feb 2012
UCSC Genes (data update: adding data from Rfam and tRNAs) 02 Feb 2012
Genotype (CNV and SNP) by Illumina 1MDuo and CBS from ENCODE/HudsonAlpha (Release 2) 20 Jan 2012
RNA-seq from ENCODE/Caltech (Release 2) 17 Jan 2012
CTCF Binding Sites by ChIP-seq from ENCODE/University of Washington (Release 2) 17 Jan 2012
Affymetrix Exon Array from ENCODE/University of Washington (Release 2) 04 Jan 2012
RNA Subcellular CAGE Localization from ENCODE/RIKEN 22 Dec 2011
SIB Genes 20 Dec 2011
Ensembl Genes v65 20 Dec 2011
Common SNPs(135), Flagged SNPs(135), Mult. SNPs(135), All SNPs(135) 16 Dec 2011
NHGRI Catalog of Published Genome-Wide Association Studies, GWAS (data update) 12 Dec 2011
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
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
Chromatin State Segmentation by HMM from ENCODE/Broad 24 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 (Tullius Lab) 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
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 (lifted from hg18) 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 (lifted from hg18) 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
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

Human Mar. 2006 (NCBI36/hg18) (hg18, NCBI Build 36.1)
 
Track/Table Name Release Date
phastBias gBGC - regions predicted to be influenced by GC-biased gene conversion 08 Nov 2013
DGV - data update (v11) 11 Oct 2013
Database of Genomic Variants: Structural Variation (CNV, Inversion, In/del) (data update) 14 Feb 2013
NHGRI Catalog of Published Genome-Wide Association Studies, GWAS (data update) 07 Feb 2013
NHGRI Catalog of Published Genome-Wide Association Studies, GWAS (data update) 14 Jan 2013
NHGRI Catalog of Published Genome-Wide Association Studies, GWAS (data update) 28 Nov 2012
NHGRI Catalog of Published Genome-Wide Association Studies, GWAS (data update) 24 Aug 2012
Tenrec Chain/Net 29 Jun 2012
NHGRI Catalog of Published Genome-Wide Association Studies, GWAS (data update) 27 Jun 2012
ISCA update 05 Jun 2012
deCODE Recombination maps, 10Kb bin size, October 2010 09 May 2012
NHGRI Catalog of Published Genome-Wide Association Studies, GWAS (data update) 01 May 2012
GeneReviews (update) 07 Mar 2012
NHGRI Catalog of Published Genome-Wide Association Studies, GWAS (data update; hg19 now uses dbSNP build 135 mappings) 07 Feb 2012
NHGRI Catalog of Published Genome-Wide Association Studies, GWAS (data update) 12 Dec 2011
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
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
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
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
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
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
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
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 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
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
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
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
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
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
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
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
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
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
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
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
AffyHuEx1.0 (Probe Set locations for Affymetrix Human Exon Genechip) 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
Update to BAC End Pairs track, recovering previously filtered BAC Ends 28 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
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
Database of Genomic Variants: Structural Variation (CNV, Inversion, In/del) (data update) 14 Feb 2013
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
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
Updated with CCDS genes (as of 2008-02-01) 12 Feb 2008
HapMap SNPs. Data correction of chimp orthologous alleles. 06 Feb 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
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
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
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
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
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
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
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
update CCDS to 2006-08-15 snapshot 17 Aug 2006
8 new subtracks for ENCODE Sanger ChIP-chip track 17 Aug 2006
Structural Variation 28 Jul 2006
Rat Chain/Net(rn4) 13 Jul 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
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
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
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
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
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
hg17ToXenTro1, hg17ToGalGal2, hg17ToMonDom1, hg17ToTetNig1, hg17ToDanRer2 liftOver (Downloads, Batch Coordinate Conversion utility) 06 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
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
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
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
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
LiftOvers: hg16 -> galgal2, mm4, mm5, mm6, panTro1, pt0, rn3 04 Jan 2006
ENCODE GIS PET RNA (update) 07 Nov 2005
NHGRI DNaseI-HS 14 Oct 2005
ENCODE YALE MAS TAR (additional data) 27 Sep 2005
ENCODE YALE MAS RNA (additional data from June freeze) 27 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
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
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
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
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
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
Chimp Recip Chain, Chimp Recip Net (updated to panTro1 assembly) 21 May 2004
Chimp Chain (updated to panTro1 assembly) 21 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 Feb. 2011 (CSAC 2.1.4/panTro4) (panTro4, CSAC Pan_troglodytes-2.1.4 (GCA_000001515.4))
 
Track/Table Name Release Date
Ensembl Genes v75 01 Apr 2014
Ensembl Genes v73 22 Oct 2013
Accession name at the INSDC - International Nucleotide Sequence Database Collaboration 10 Sep 2013
Ensembl Genes v72 12 Aug 2013
Human Chain/Net 21 Jun 2013
Ensembl Genes v70 01 May 2013
Rhesus Chain/Net 03 Dec 2012
Initial panTro4 release (using CSAC Pan_troglodytes-2.1.4 (GCA_000001515.4)): Assembly, Gap, GC Percent, RefSeq Genes, Other RefSeq, Ensembl Genes, Genscan Genes, Chimp mRNAs, Spliced ESTs, Chimp ESTs, Other mRNAS, CpG Islands, Rhesus Chain/Net, Mouse Chain/Net, RepeatMasker, Interrupted Repeats, WM + SDust, Simple Repeats 21 Nov 2012

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
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
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 build 125 29 Aug 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
Ensembl Genes v75 01 Apr 2014
Ensembl Genes v73 22 Oct 2013
Accession name at the INSDC - International Nucleotide Sequence Database Collaboration 10 Sep 2013
Ensembl Genes v72 12 Aug 2013
Rhesus Chain/Net 03 Dec 2012
Tarsier Chain/Net 16 Nov 2012
Baboon Chain/Net 16 Nov 2012
Mouse lemur Chain/Net 08 Nov 2012
Multiz Alignment & Conservation (11 Species) 09 Dec 2011
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
Ensembl Genes v75 01 Apr 2014
Ensembl Genes v73 22 Oct 2013
Ensembl Genes v72 12 Aug 2013
Ensembl Genes v70 01 May 2013
Rhesus Chain/Net 03 Dec 2012
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 Oct. 2012 (GGSC Nleu3.0/nomLeu3) (nomLeu3, Gibbon Genome Sequencing Consortium )
 
Track/Table Name Release Date
Accession name at the INSDC - International Nucleotide Sequence Database Collaboration 10 Sep 2013
Initial nomLeu3 release (using Gibbon Genome Sequencing Consortium ): see separate push queue nomLeu3: Human Chain, Human Net, Assembly, Gap, GC Percent, Other RefSeq, Genscan Genes, Other mRNAs, CpG Islands, RepeatMasker, Interrupted Rpts, WM + SDust, Simple Repeats, Human Chain/Net, Chain, Net 25 May 2013

Gibbon Jun. 2011 (GGSC Nleu1.1/nomLeu2) (nomLeu2, Gibbon Genome Sequencing Consortium Nleu1.1 (NCBI project 13975, GCA_000146795.2, WGS ADFV01))
 
Track/Table Name Release Date
Initial nomLeu2 release (using Gibbon Genome Sequencing Consortium Nleu1.1 (NCBI project 13975, GCA_000146795.2, WGS ADFV01)): Assembly, Gap, GC Percent, Other RefSeq, Genscan Genes, Other mRNAs, CpG Islands, Mouse Chain/Net, RepeatMasker, Interrupted Repeats, WM + SDust, Simple Repeats 16 Nov 2012

Gibbon Jan. 2010 (GGSC Nleu1.0/nomLeu1) (nomLeu1, GGSC (NCBI project 13975, accession GCA_000146795.1))
 
Track/Table Name Release Date
Ensembl Genes v75 01 Apr 2014
Ensembl Genes v74 23 Dec 2013
Ensembl Genes v73 22 Oct 2013
Ensembl Genes v72 12 Aug 2013
Ensembl Genes v70 01 May 2013
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 Oct. 2010 (BGI CR_1.0/rheMac3) (rheMac3, Beijing Genomics Institute, Shenzhen (GCA_000230795.1))
 
Track/Table Name Release Date
Human Chain/Net 06 Mar 2014
Accession name at the INSDC - International Nucleotide Sequence Database Collaboration 10 Sep 2013
Initial rheMac3 release (using Beijing Genomics Institute, Shenzhen (GCA_000230795.1)): Assembly, Scaffolds, Gap, GC Percent, Short Match, Restr Enzymes, RefSeq Genes, Other RefSeq, Genscan Genes, Rhesus mRNAs, Spliced ESTs, Rhesus ESTs, Other mRNAs, CpG Islands, Orangutan Chain/Net, Gorilla Chain/Net, Chimp Chain/Net, Human Chain/Net, Marmoset Chain/Net, Rat Chain/Net, Mouse Chain/Net, Opossum Chain/Net, RepeatMasker, Interrupted Rpts, WM + SDust, Simple Repeats. 03 Dec 2012

Rhesus Jan. 2006 (MGSC Merged 1.0/rheMac2) (rheMac2, Venter Inst./Baylor/WashU Merged assembly Jan 2006 v1 edit4)
 
Track/Table Name Release Date
Ensembl Genes v75 01 Apr 2014
Ensembl Genes v73 22 Oct 2013
Ensembl Genes v72 12 Aug 2013
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
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
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

Baboon Mar. 2012 (Baylor Panu_2.0/papAnu2) (papAnu2, Baylor College of Medicine)
 
Track/Table Name Release Date
Ensembl Gene Predictions - Ensembl 76 21 Aug 2014
Initial papAnu2 release (using Baylor College of Medicine): Assembly, Gap, GC Percent, Short Match, Restr Enzymes, RefSeq Genes, Other RefSeq, Genscan Genes, Baboon mRNAs, Spliced ESTs, Baboon ESTs, Other mRNAs, CpG Islands, RepeatMasker, Interrupted Rpts, Simple Repeats. 23 Jan 2013

Baboon Nov. 2008 (Baylor Pham_1.0/papHam1) (papHam1, Baylor BCM HGSC Pham_1.0)
 
Track/Table Name Release Date
Initial papHam1 release (using Baylor BCM HGSC Pham_1.0): Assembly, Gap, GC Percent, Quality Scores, Other RefSeq, Genscan Genes, Baboon mRNAs, Other mRNAS, CpG Islands, Gorilla Chain/Net, Marmoset Chain/Net, Mouse Chain/Net, RepeatMasker, Interrupted Repeats, WM + SDust, Simple Repeats 16 Nov 2012

Squirrel monkey Oct. 2011 (Broad/saiBol1) (saiBol1, Broad SaiBol1.0 (GCA_000235385.1))
 
Track/Table Name Release Date
Accession name at the INSDC - International Nucleotide Sequence Database Collaboration 10 Sep 2013
Initial saiBol1 release (using Broad SaiBol1.0 (GCA_000235385.1)): Assembly, Gap, GC Percent, Other RefSeq, Genscan Genes, Squirrel monkey mRNAs, Other mRNAs, CpG Islands, Mouse Chain/Net, RepeatMasker, Interrupted Repeats, WM + SDust, Simple Repeats 13 Nov 2012

Marmoset March 2009 (WUGSC 3.2/calJac3) (calJac3, WUSTL 3.2 (GCA_000004665.1))
 
Track/Table Name Release Date
CpG Islands on All Sequence (unmasked sequence CpG island track) 30 May 2014
Ensembl Genes v75 01 Apr 2014
Ensembl Genes v74 23 Dec 2013
Genscan Genes 02 Dec 2013
Ensembl Genes v73 22 Oct 2013
Accession name at the INSDC - International Nucleotide Sequence Database Collaboration 10 Sep 2013
Ensembl Genes v72 12 Aug 2013
Ensembl Genes v70 01 May 2013
Rhesus Chain/Net 03 Dec 2012
Baboon Chain/Net 16 Nov 2012
Mouse lemur Chain/Net 08 Nov 2012
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

Tarsier Aug. 2008 (Broad/tarSyr1) (tarSyr1, Broad Institute tarSyr1 (NCBI project 20335, ABRT000000000))
 
Track/Table Name Release Date
Ensembl Genes v75 01 Apr 2014
Ensembl Genes v73 22 Oct 2013
Ensembl Genes v72 12 Aug 2013
Initial tarSyr1 release (using Broad Institute tarSyr1 (NCBI project 20335, ABRT000000000)): Assembly, Gap, GC Percent, Quality Scores, Ensembl Assembly, Other RefSeq, Ensembl Genes, Genscan Genes, Tarsier mRNAs, CpG Islands, Gorilla Chain/Net, Mouse Chain/Net, RepeatMasker, Interrupted Repeats, WM + SDust, Simple Repeats 16 Nov 2012

Mouse lemur Jul. 2007 (Broad/micMur1) (micMur1, Broad Institute micMur1 (NCBI project 19967, ABDC00000000))
 
Track/Table Name Release Date
Ensembl Genes v75 01 Apr 2014
Ensembl Genes v73 22 Oct 2013
Ensembl Genes v72 12 Aug 2013
Initial micMur1 release (using Broad Institute micMur1 (NCBI project 19967, ABDC00000000)): Assembly, Gap, GC Percent, Quality Scores, Ensembl Assembly, Other RefSeq, Ensembl Genes, Genscan Genes, Mouse lemur mRNAs, CpG Islands, Gorilla Chain/Net, Marmoset Chain/Net, Mouse Chain/Net, RepeatMasker, Interrupted Repeats, WM + SDust, Simple Repeats 08 Nov 2012

Bushbaby Mar. 2011 (Broad/otoGar3) (otoGar3, Broad Institute (GCA_000181295.3))
 
Track/Table Name Release Date
Ensembl Genes v75 01 Apr 2014
Ensembl Genes v74 23 Dec 2013
Ensembl Genes v73 22 Oct 2013
Accession name at the INSDC - International Nucleotide Sequence Database Collaboration 10 Sep 2013
Ensembl Genes v72 12 Aug 2013
Initial otoGar3 release (using Broad Institute (GCA_000181295.3)): see separate push queue otoGar3. 21 Nov 2012

Tree shrew Dec. 2006 (Broad/tupBel1) (tupBel1, Broad Institute tupBel1 (NCBI project 13971, AAPY01000000))
 
Track/Table Name Release Date
Ensembl Genes v75 01 Apr 2014
Ensembl Genes v73 22 Oct 2013
Ensembl Genes v72 12 Aug 2013
Initial tupBel1 release (using Broad Institute tupBel1 (NCBI project 13971, AAPY01000000)): Assembly, Gap, GC Percent, Quality Scores, Ensembl Assembly, Other RefSeq, Ensembl Genes, Genscan Genes, Tree shrew mRNAs, Spliced ESTs, Tree shrew ESTs, CpG Islands, Mouse Chain/Net, RepeatMasker, Interrupted Repeats, WM + SDust, Simple Repeats 16 Nov 2012
quality score fasta files 16 Jun 2009

Mouse Dec. 2011 (GRCm38/mm10) (mm10, Genome Reference Consortium Mouse Build 38 (GCA_000001635.2))
 
Track/Table Name Release Date
Shrew Chain/Net 14 Jul 2014
FaceBase 24 Sample Types Averaged 02 Jul 2014
Vertebrate Multiz Alignment & Conservation (60 Species) 23 Jun 2014
UCSC Genes 11 Apr 2014
Ensembl Genes v75 01 Apr 2014
GENCODE Gene annotations for mouse, Version M2 11 Mar 2014
Human Chain/Net 06 Mar 2014
Common SNPs(138), Mult. SNPs(138), All SNPS(138) 21 Feb 2014
Ensembl genes v74 23 Dec 2013
Mouse Genome Informatics Quantitative Trait Loci (lifted from mm9/NCBI 37) 03 Dec 2013
Ensembl Genes v73 22 Oct 2013
Alpaca Chain/Net 13 Sep 2013
Accession name at the INSDC - International Nucleotide Sequence Database Collaboration 10 Sep 2013
Tenrec Chain/Net 29 Aug 2013
Retroposed Genes for hg19, Build 5.0 Retroposed Genes for mm10, Build 2.0 22 Aug 2013
Ensembl Genes v72 12 Aug 2013
Ensembl Genes v70 01 May 2013
cytoBandIdeo tables added for navigation/orientation 24 Apr 2013
SNPs (137) for mouse 06 Mar 2013
qPCR Primers 29 Jan 2013
White rhinoceros Chain/Net 24 Jan 2013
Alternate mouse strain sequences 18 Jan 2013
GRCm38 patch1 alternate sequences and reference sequence patches 09 Jan 2013
Lamprey Chain/Net 08 Jan 2013
Contig fragments used in the assembly 19 Dec 2012
Rhesus Chain/Net 03 Dec 2012
Dolphin Chain/Net 03 Dec 2012
Naked mole-rat Chain/Net 03 Dec 2012
Cat Chain/Net 03 Dec 2012
Chimp Chain/Net 21 Nov 2012
Bushbaby Chain/Net 21 Nov 2012
Nile tilapia Chain/Net 21 Nov 2012
Pika Chain/Net 21 Nov 2012
Armadillo Chain/Net 21 Nov 2012
GRC Incident 21 Nov 2012
Budgerigar Chain/Net 20 Nov 2012
Coelacanth Chain/Net 20 Nov 2012
Atlantic cod Chain/Net 20 Nov 2012
Alpaca Chain/Net 16 Nov 2012
Tree shrew Chain/Net 16 Nov 2012
Tarsier Chain/Net 16 Nov 2012
Pig Chain/Net 16 Nov 2012
Shrew Chain/Net 16 Nov 2012
Megabat Chain/Net 16 Nov 2012
Rock hyrax Chain/Net 16 Nov 2012
Baboon Chain/Net 16 Nov 2012
Gibbon Chain/Net 16 Nov 2012
Manatee Chain/Net 13 Nov 2012
Squirrel Chain/Net 13 Nov 2012
Squirrel monkey Chain/Net 13 Nov 2012
Mouse lemur Chain/Net 08 Nov 2012
Hedgehog Chain/Net 08 Nov 2012
Kangaroo rat Chain/Net 08 Nov 2012
Sloth Chain/Net 08 Nov 2012
Vertebrate Multiz Alignment & Conservation (60 Species) 04 Oct 2012
Medium ground finch Chain/Net 17 Aug 2012
Tasmanian devil Chain/Net 20 Jul 2012
Tenrec Chain/Net 29 Jun 2012
Dog Chain/Net 25 Jun 2012
Rat Chain/Net 11 Jun 2012
Chicken Chain/Net 11 Jun 2012
Painted turtle Chain/Net 11 Jun 2012
Cow Chain/Net 11 Jun 2012
Naked mole-rat Chain/Net 16 May 2012
Initial mm10 release (using Genome Reference Consortium Mouse Build 38 (GCA_000001635.2)): Assembly, Gap, GC Percent, Short Match, Restr Enzymes, RefSeq Genes, Other RefSeq, MGC Genes, Ensembl Genes, Genscan Genes, Mouse mRNAs, Spliced ESTs, Mouse ESTs, Other mRNAs, CpG Islands, Repeat Masker, Interrupted Rpts, WM+SDust, Simple Repeats, Microsatellite 08 Mar 2012

Mouse July 2007 (NCBI37/mm9) (mm9, NCBI Build 37)
 
Track/Table Name Release Date
pubsBingBlat (a run of hg19-BLAT against all webpages on the internet indexed by bing.com) 23 Jan 2014
Ensembl Genes v73 22 Oct 2013
DNaseI Hypersensitivity by Digital DNaseI from ENCODE/University of Washington (Release 2) 25 Sep 2012
DNaseI Digital Genomic Footprinting from ENCODE/University of Washington 07 Sep 2012
Histone Modifications by ChIP-seq from ENCODE/LICR (Release 3) 05 Sep 2012
Long RNA-seq from ENCODE/Cold Spring Harbor Lab (Release 3) 05 Sep 2012
Histone Modifications by ChIP-seq from ENCODE/SYDH (Release 2) 20 Aug 2012
Transcription Factor Binding Sites by ChIP-seq from ENCODE/Stanford/Yale (Release 4) 16 Aug 2012
DNaseI Hypersensitivity by Digital DNaseI from ENCODE/PSU 16 Aug 2012
Transcription Factor Binding Sites by ChIP-seq from ENCODE/LICR (Release 3) 13 Aug 2012
Transcription Factor Binding Sites by ChIP-seq from ENCODE/PSU (Release 2) 07 Aug 2012
Histone Modifications by ChIP-seq from ENCODE/PSU (Release 2) 06 Aug 2012
RNA-seq from ENCODE/Stanford/Yale (Release 2) 01 Aug 2012
RNA-seq from ENCODE/UW 10 Jul 2012
Replication Timing by Repli-chip from ENCODE/FSU 03 Jul 2012
Long RNA-seq from ENCODE/Cold Spring Harbor Lab (Release 2) 29 Jun 2012
RNA-seq from ENCODE/Stanford 25 Jun 2012
IKMC Genes (update) 22 Jun 2012
Mapability or Uniqueness of Reference Genome from ENCODE 19 Jun 2012
Transcription Factor Binding Sites by ChIP-seq from ENCODE/Stanford/Yale (Release 3) 15 Jun 2012
RNA-seq from ENCODE/Caltech 07 May 2012
RNA-seq from ENCODE/LICR (Release 2) 04 May 2012
Histone Modifications by ChIP-seq from ENCODE/PSU 30 Apr 2012
GRC Incident 17 Apr 2012
Transcription Factor Binding Sites by ChIP-seq from ENCODE/LICR (Release 2) 13 Apr 2012
Histone Modifications by ChIP-seq from ENCODE/LICR (Release 2) 28 Mar 2012
Long RNA-seq from ENCODE/Cold Spring Harbor Lab 29 Feb 2012
Transcription Factor Binding Sites by ChIP-seq from ENCODE/PSU 13 Feb 2012
Yale Pseudogenes based on Ensembl Release 60 17 Jan 2012
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
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
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
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
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
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
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
Gene Trap (data update 03-01-2009) 12 Mar 2009
Ensembl Genes v52 18 Feb 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
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
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
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
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
Updated with CCDS genes (as of 2008-02-01) 12 Feb 2008
Affymetrix Mouse Exon array version 1.0 probes and transcripts 18 Oct 2007
Added CONTRAST gene predictions 17 Oct 2007
Swiss Institute of Bioinformatics, SIB Genes initial release 25 Sep 2007
Swiss Institute of Bioinformatics Alt-Splicing initial release. 25 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
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
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
Added NCBI Clone Validation information to details of MGC genes 12 Jan 2007
miRNA data update 12 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
Rat Ortholog column of Gene Sorter and Known Gene details updated to rn4 20 Jul 2006
Ensembl Gene Predictions 10 Jul 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
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
Gene Trap (data update 3-1-2007) 14 Mar 2007
Allen Brain Atlas Probes 07 Mar 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
regPotential7X data download files for hg18, hg17, mm8, mm7 26 Jun 2006
ESPERR Regulatory Potential (7 species) 22 Jun 2006
MicroRNA target sites in 3' UTRs as predicted by PicTar 24 May 2006
sgpGene 24 May 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 Jul. 2014 (RGSC 6.0/rn6) (rn6, RGSC Rnor_6.0)
 
Track/Table Name Release Date
Initial rn6 release (using RGSC Rnor_6.0 (GCA_000001895.4)): Assembly, Gap, GC Percent, INSDC, RefSeq Genes, MGC Genes, Other RefSeq, Genscan Genes, Rat mRNAs, Rat ESTs, Spliced ESTs, Other mRNAs, CpG Islands, RepeatMasker, Interrupted Repeats, Simple Repeats, WindowMasker + SDust. 01 Aug 2014

Rat Mar. 2012 (RGSC 5.0/rn5) (rn5, RGSC Rnor_5.0 (GCA_000001895.3))
 
Track/Table Name Release Date
Multiz Alignment & Conservation (13 Species) 20 Jun 2014
Ensembl Genes v75 01 Apr 2014
Ensembl Genes v74 23 Dec 2013
Ensembl Genes v73 22 Oct 2013
Accession name at the INSDC - International Nucleotide Sequence Database Collaboration 10 Sep 2013
Ensembl Genes v72 12 Aug 2013
Chromosome Band Track 26 Jul 2013
Ensembl Genes v70 01 May 2013
Rhesus Chain/Net 03 Dec 2012
Initial rn5 release (using RGSC Rnor_5.0 (GCA_000001895.3)): Assembly, Gap, GC Percent, Genscan Genes, CpG Islands, RepeatMasker, Interrupted Repeats, Simple Repeats, WM + SDust, RefSeq Genes, Other RefSeq, MGC Genes, Rat mRNAs, Spliced ESTs, Rat ESTs, Other mRNAs, Mouse Chain/Net 11 Jun 2012

Rat Nov. 2004 (Baylor 3.4/rn4) (rn4, Baylor HGSC v. 3.4)
 
Track/Table Name Release Date
pubsBingBlat (a run of hg19-BLAT against all webpages on the internet indexed by bing.com) 23 Jan 2014
Ensembl Genes v73 22 Oct 2013
Cow Chain/Net 11 Jun 2012
RGD Genes for rat (rn4) 29 Feb 2012
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
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
Chains and Nets for non-primate mammal species vs Human 16 Sep 2009
Ensembl gene update to version 55 11 Aug 2009
quality score fasta files 16 Jun 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 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
Superfamily track, Gene Sorter column 28 Jun 2006
Proteome Browser release 28 Jun 2006
Known Genes 22 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
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
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
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
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
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

Kangaroo rat Jul. 2008 (Broad/dipOrd1) (dipOrd1, Broad Institute dipOrd1 (NCBI project 20385, ABRO01000000))
 
Track/Table Name Release Date
CpG Islands on All Sequence (unmasked sequence CpG island track) 30 May 2014
Ensembl Genes v75 01 Apr 2014
Ensembl Genes v73 22 Oct 2013
Ensembl Genes v72 12 Aug 2013
Initial dipOrd1 release (using Broad Institute dipOrd1 (NCBI project 20385, ABRO01000000)): Assembly, Gap, GC Percent, Quality Scores, Ensembl Assembly, Other RefSeq, Ensembl Genes, Genscan Genes, Kangaroo rat mRNAs, Other mRNAs, CpG Islands, Mouse Chain/Net, RepeatMasker, Interrupted Repeats, WM + SDust, Simple Repeats 08 Nov 2012

Chinese hamster Jul. 2013 (C_griseus_v1.0/criGri1) (criGri1, Beijing Genomics Institution-Shenzhen)
 
Track/Table Name Release Date
Initial criGri1 release (using Beijing Genomics Institution-Shenzhen): Assembly, Gap, GC Percent, INSDC, RefSeq Genes, Other RefSeq, Genscan Genes, Chinese hamster mRNAs, Spliced ESTs, Chinese hamster ESTs, CpG Islands, Human Chain/Net, RepeatMasker, Interrupted Repeats, Simple Repeats, WM + SDust 08 May 2014

Naked mole-rat Jan. 2012 (Broad HetGla_female_1.0/hetGla2) (hetGla2, Broad Institute HetGla_female_1.0 (NCBI project 72441, GCA_000247695.1, WGS AHKG01))
 
Track/Table Name Release Date
Accession name at the INSDC - International Nucleotide Sequence Database Collaboration 10 Sep 2013
Initial hetGla2 release (using Broad Institute HetGla_female_1.0 (NCBI project 72441, GCA_000247695.1, WGS AHKG01)): Assembly, Gap, GC Percent, Short Match, Restr Enzymes, Other RefSeq, Genscan Genes, Other mRNAs, CpG Islands, Mouse Chain/Net, RepeatMasker, Interrupted Rpts, WM + SDust, Simple Repeats. 03 Dec 2012

Naked mole-rat Jul. 2011 (BGI HetGla_1.0/hetGla1) (hetGla1, HetGla_1.0 (NCBI project 68323, accession GCA_000230455.1))
 
Track/Table Name Release Date
Initial hetGla1 release (using HetGla_1.0 (NCBI project 68323, accession GCA_000230455.1)): Assembly, Gap, GC Percent, PCR Results, Short Match, Restr Enzymes, Other RefSeq, Genscan Genes, Naked mole-rat mRNAs, Other mRNAs, CpG Islands, mm10 Chain/Net, Repeat Masker, Interrupted Rpts, WM+SDust, Simple Repeats 16 May 2012

Guinea pig Feb. 2008 (Broad/cavPor3) (cavPor3, Broad Institute cavPor3)
 
Track/Table Name Release Date
CpG Islands on All Sequence (unmasked sequence CpG island track) 30 May 2014
Ensembl Genes v75 01 Apr 2014
Ensembl Genes v73 22 Oct 2013
Ensembl Genes v72 12 Aug 2013
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 v75 01 Apr 2014
Genscan Genes 02 Dec 2013
Ensembl Genes v73 22 Oct 2013
Accession name at the INSDC - International Nucleotide Sequence Database Collaboration 10 Sep 2013
Ensembl Genes v72 12 Aug 2013
Ensembl Genes v65 22 Dec 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
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

Squirrel Nov. 2011 (Broad/speTri2) (speTri2, Broad Institute (GCA_000236235.1))
 
Track/Table Name Release Date
Ensembl Genes v74 23 Dec 2013
Ensembl Genes v73 22 Oct 2013
Accession name at the INSDC - International Nucleotide Sequence Database Collaboration 10 Sep 2013
Ensembl Genes v72 12 Aug 2013
Initial speTri2 release (using Broad Institute (GCA_000236235.1)): Assembly, Gap, GC Percent, Other RefSeq, Ensembl Genes, Genscan Genes, Squirrel mRNAs, Spliced ESTs, Squirrel ESTs, CpG Islands, Mouse Chain/Net, RepeatMasker, Interrupted Repeats, WM + SDust, Simple Repeats 13 Nov 2012

Pika May 2012 (OchPri3.0/ochPri3) (ochPri3, Broad Institute)
 
Track/Table Name Release Date
Initial ochPri3 release (using Broad Institute): Assembly, Gap, GC Percent, INSDC, Genscan Genes, Other RefSeq, Pika mRNAs, CpG Islands, Human Chain/Net, Interrupted Repeats, RepeatMasker, Simple Repeats, WM + SDust 14 Jul 2014

Pika Jul. 2008 (Broad/ochPri2) (ochPri2, Broad Institute ochPri2)
 
Track/Table Name Release Date
Ensembl Genes v75 01 Apr 2014
Ensembl Genes v73 22 Oct 2013
Ensembl Genes v72 12 Aug 2013
Initial ochPri2 release (using Broad Institute ochPri2): Assembly, Gap, GC Percent, Quality Scores, Ensembl Assembly, Other RefSeq, Ensembl Genes, Genscan Genes, Pika mRNAs, CpG Islands, Mouse Chain/Net, RepeatMasker, Interrupted Repeats, WM + SDust, Simple Repeats 21 Nov 2012

Pig Aug. 2011 (SGSC Sscrofa10.2/susScr3) (susScr3, SGSC Sscrofa10.2 (NCBI project 13421, GCA_000003025.4, WGS AEMK01))
 
Track/Table Name Release Date
Animal Quantitative Trait Loci from animalQTLdb 27 Jun 2014
Ensembl Genes v75 01 Apr 2014
Mult. SNPs(138), All SNPs(138) 28 Feb 2014
pubsBingBlat (a run of hg19-BLAT against all webpages on the internet indexed by bing.com) 23 Jan 2014
Ensembl Genes v74 23 Dec 2013
Ensembl Genes v73 22 Oct 2013
Accession name at the INSDC - International Nucleotide Sequence Database Collaboration 10 Sep 2013
Ensembl Genes v72 12 Aug 2013
Ensembl Genes v70 01 May 2013
Initial susScr3 release (using SGSC Sscrofa10.2 (NCBI project 13421, GCA_000003025.4, WGS AEMK01)): Assembly, Gap, GC Percent, RefSeq Genes, Other RefSeq, Ensembl Genes, Genscan Genes, Pig mRNAs, Spliced ESTs, Pig ESTs, Other mRNAs, CpG Islands, Mouse Chain/Net, RepeatMasker, Interrupted Repeats, WM + SDust, Simple Repeats 16 Nov 2012

Pig Nov. 2009 (SGSC Sscrofa9.2/susScr2) (susScr2, SGSC Sscrofa9.2 (NCBI project 10718, GCA_000003025.2))
 
Track/Table Name Release Date
NumtS Sequence 23 Jul 2013
Cow Chain/Net 11 Jun 2012
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

Alpaca Mar. 2013 (Vicugna_pacos-2.0.1/vicPac2) (vicPac2, Broad Institute)
 
Track/Table Name Release Date
Initial vicPac2 release (using Broad Institute): Assembly, Gap, GC Percent, Short Match, Restr Enzymes, Other RefSeq, Genscan Genes, Aplaca mRNAs, Spliced ESTs, Alpaca ESTs, CpG Islands, Mouse Chain/Net, Human Chain/Net, RepeatMasker, Interrupted Rpts, WM + SDust, Simple Repeats 11 Sep 2013

Alpaca Jul. 2008 (Broad/vicPac1) (vicPac1, Broad Institute vicPac1)
 
Track/Table Name Release Date
Ensembl Genes v75 01 Apr 2014
Ensembl Genes v73 22 Oct 2013
Ensembl Genes v72 12 Aug 2013
Initial vicPac1 release (using Broad Institute vicPac1): Assembly, Gap, GC Percent, Quality Scores, Ensembl Assembly, Other RefSeq, Ensembl Genes, Genscan Genes, Spliced ESTs, Alpaca ESTs, CpG Islands, Cow Chain/Net, Mouse Chain/Net, RepeatMasker, Interrupted Repeats, WM + SDust, Simple Repeats 16 Nov 2012

Minke whale Oct. 2013 (BalAcu1.0/balAcu1) (balAcu1, Korea Ocean Research & Development Institute)
 
Track/Table Name Release Date
Initial balAcu1 release (using Korea Ocean Research & Development Institute BalAcu1.0 (GCA_000493695.1)): Assembly, Gap, GC Percent, Genscan Genes, Other RefSeq, INSDC, CpG Islands, RepeatMasker, Interrupted Rpts, Simple Repeats, WindowMasker + SDust 15 Apr 2014

Dolphin Oct. 2011 (Baylor Ttru_1.4/turTru2) (turTru2, Baylor College of Medicine Ttru_1.4 (NCBI project 20365, GCA_000151865.2, WGS ABRN02))
 
Track/Table Name Release Date
Accession name at the INSDC - International Nucleotide Sequence Database Collaboration 10 Sep 2013
Initial turTru2 release (using Baylor College of Medicine Ttru_1.4 (NCBI project 20365, GCA_000151865.2, WGS ABRN02)): Assembly, Gap, GC Percent, Short Match, Restr Enzymes, Other RefSeq, Genscan Genes, CpG Islands, Cow Chain/Net, Mouse Chain/Net, RepeatMasker, Interrupted Rpts, WM + SDust, Simple Repeats. 03 Dec 2012

Sheep Aug. 2012 (ISGC Oar_v3.1/oviAri3) (oviAri3, International Sheep Genome Consortium)
 
Track/Table Name Release Date
Animal Quantitative Trait Loci from animalQTLdb 27 Jun 2014
Ensembl Genes v75 01 Apr 2014
Ensembl Genes v74 23 Dec 2013
Initial oviAri3 release (using International Sheep Genome Consortium): Assembly, Gap, GC Percent, RefSeq Genes, Other RefSeq, Genscan Genes, Sheep mRNAs, Spliced ESTs, Sheep ESTs, Other mRNAs, CpG Islands, Human Chain/Net, RepeatMasker, Interrupted Repeats, WM + SDust, Simple Repeats. 04 Sep 2013

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. 2011 (Baylor Btau_4.6.1/bosTau7) (bosTau7, Btau_4.6.1 (NCBI project 12555, accession GCA_000003205.4))
 
Track/Table Name Release Date
Animal Quantitative Trait Loci from animalQTLdb 27 Jun 2014
CpG Islands on All Sequence (unmasked sequence CpG island track) 30 May 2014
Common SNPs(138), Mult. SNPs(138), All SNPs(138) 28 Feb 2014
pubsBingBlat (a run of hg19-BLAT against all webpages on the internet indexed by bing.com) 23 Jan 2014
Accession name at the INSDC - International Nucleotide Sequence Database Collaboration 10 Sep 2013
White rhinoceros Chain/Net 24 Jan 2013
Dolphin Chain/Net 03 Dec 2012
Alpaca Chain/Net 16 Nov 2012
Initial bosTau7 release (using Btau_4.6.1 (NCBI project 12555, accession GCA_000003205.4)): Assembly, Gap, GC Percent, Scaffolds, Genscan Genes, CpG Islands, RepeatMasker, Interrupted Repeats, Simple Repeats, WM + SDust, RefSeq Genes, Other RefSeq, Cow mRNAs, Spliced ESTs, Cow ESTs, Other mRNAs, Dog Chain/Net, Human Chain/Net, Mouse Chain/Net, Opossum Chain/Net, Platypus Chain/Net, Rat Chain/Net, Pig Chain/Net 11 Jun 2012

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
CpG Islands on All Sequence (unmasked sequence CpG island track) 30 May 2014
Ensembl Genes v75 01 Apr 2014
Ensembl Genes v73 22 Oct 2013
NumtS Sequence 19 Aug 2013
cytoBandIdeo (for navigation) 19 Aug 2013
Ensembl Genes v72 12 Aug 2013
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

Cow Oct. 2007 (Baylor 4.0/bosTau4) (bosTau4, Baylor Release 4.0)
 
Track/Table Name Release Date
CpG Islands on All Sequence (unmasked sequence CpG island track) 30 May 2014
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
CpG Islands on All Sequence (unmasked sequence CpG island track) 30 May 2014
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
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
CpG Islands on All Sequence (unmasked sequence CpG island track) 30 May 2014
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
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

Horse Sep. 2007 (Broad/equCab2) (equCab2, Broad Institute EquCab2)
 
Track/Table Name Release Date
Horse QTL 13 Oct 2014
Genscan Genes 02 Dec 2013
Ensembl Genes v73 22 Oct 2013
Ensembl Genes v72 12 Aug 2013
Ensembl Genes v70 01 May 2013
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

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
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

White rhinoceros May 2012 (CerSimSim1.0/cerSim1) (cerSim1, Broad Institute)
 
Track/Table Name Release Date
CpG Islands on All Sequence (unmasked sequence CpG island track) 30 May 2014
Accession name at the INSDC - International Nucleotide Sequence Database Collaboration 10 Sep 2013
Initial cerSim1 release (using Broad Institute): Assembly, Gap, GC Percent, Other RefSeq, Genscan Genes, White rhinoceros mRNAs, CpG Islands, Opossum Chain/Net, Cow Chain/Net, Mouse Chain/Net, Human Chain/Net, RepeatMasker, Interrupted Repeats, WM + SDust, Simple Repeats 24 Jan 2013

Cat Sep. 2011 (ICGSC Felis_catus 6.2/felCat5) (felCat5, International Cat Genome Sequencing Consortium Felis_catus-6.2 (NCBI project 16726, accession AANG00000000.2, GCA_000181335.2))
 
Track/Table Name Release Date
Human Chain/Net 03 Apr 2014
Ensembl Genes v75 01 Apr 2014
Ensembl Genes v73 22 Oct 2013
Accession name at the INSDC - International Nucleotide Sequence Database Collaboration 10 Sep 2013
Ensembl Genes v72 12 Aug 2013
Ensembl Genes v70 01 May 2013
Initial felCat5 release (using International Cat Genome Sequencing Consortium Felis_catus-6.2 (NCBI project 16726, accession AANG00000000.2, GCA_000181335.2)): Assembly, Gap, GC Percent, Short Match, Restr Enzymes, RefSeq Genes, Other RefSeq, Genscan Genes, Cat mRNAs, Spliced ESTs, Cat ESTs, Other mRNAs, CpG Islands, Mouse Chain/Net, RepeatMasker, Interrupted Rpts, WM + SDust, Simple Repeats. 03 Dec 2012

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
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

Ferret Apr. 2011 (MusPutFur1.0/musFur1) (musFur1, Ferret Genome Sequencing Consortium)
 
Track/Table Name Release Date
Ensembl Genes v75 01 Apr 2014
Ensembl Genes v73 22 Oct 2013
Accession name at the INSDC - International Nucleotide Sequence Database Collaboration 10 Sep 2013
Ensembl Genes v72 12 Aug 2013
Initial musFur1 release (using Ferret Genome Sequencing Consortium MusPutFur1.0 (GCA_000215625.1)): Assembly, Gap, GC Percent, Short Match, Restr Enzymes, Other RefSeq, Ensembl Genes, Genscan Genes, Ferret mRNAs, Spliced ESTs, Ferret ESTs, CpG Islands, RepeatMasker, Interrupted Rpts, WM + SDust, Simple Repeats. 13 Jun 2013

Dog Sep. 2011 (Broad CanFam3.1/canFam3) (canFam3, Broad CanFam3.1 (GCA_000002285.2))
 
Track/Table Name Release Date
CpG Islands on All Sequence (unmasked sequence CpG island track) 30 May 2014
Ensembl Genes v75 01 Apr 2014
Human Chain/Net 06 Mar 2014
Ensembl Genes v73 22 Oct 2013
Accession name at the INSDC - International Nucleotide Sequence Database Collaboration 10 Sep 2013
Ensembl Genes v72 12 Aug 2013
Human Chain/Net 31 Jan 2013
Initial canFam3 release (using Broad CanFam3.1 (GCA_000002285.2)): Assembly, Gap, GC Percent, Short Match, Restr Enzymes, Genscan Genes, CpG Islands, RepeatMasker, Interrupted Repeats, Simple Repeats, WM + SDust, RefSeq Genes, Other RefSeq, Dog mRNAs, Spliced ESTs, Dog ESTs, Other mRNAs, Mouse Chain/Net 25 Jun 2012

Dog May 2005 (Broad/canFam2) (canFam2, Broad Institute v. 2.0)
 
Track/Table Name Release Date
CpG Islands on All Sequence (unmasked sequence CpG island track) 30 May 2014
SNPs (131) 16 Jul 2012
Cow Chain/Net 11 Jun 2012
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
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
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
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
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
SNP build 125 24 Aug 2006
N-SCAN gene predictions from Brent Lab at WUStL 21 Apr 2006
Ensembl Genes 07 Mar 2006
BAC End Pairs 02 Dec 2005
hg17ToCanFam1 and canFam1ToHg17 liftOver (Downloads, Batch Coordinate Conversion utility) 05 Jul 2005
chain/net tracks to mm6 05 May 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

Panda Dec. 2009 (BGI-Shenzhen 1.0/ailMel1) (ailMel1, BGI-Shenzhen AilMel 1.0 Dec. 2009)
 
Track/Table Name Release Date
Ensembl Genes v74 23 Dec 2013
Genscan Genes 02 Dec 2013
Ensembl Genes v73 22 Oct 2013
Accession name at the INSDC - International Nucleotide Sequence Database Collaboration 10 Sep 2013
Ensembl Genes v72 12 Aug 2013
tRNA Genes 15 Mar 2012
Ensembl Genes v65 22 Dec 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
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

Microbat Jul. 2010 (Broad Institute Myoluc2.0/myoLuc2) (myoLuc2, Broad Institute (NCBI Project ID: 16951, Accession: GCA_000147115.1))
 
Track/Table Name Release Date
Ensembl Genes v75 01 Apr 2014
Ensembl Genes v74 23 Dec 2013
Genscan Genes 02 Dec 2013
Ensembl Genes v73 22 Oct 2013
Accession name at the INSDC - International Nucleotide Sequence Database Collaboration 10 Sep 2013
Ensembl Genes v72 12 Aug 2013
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

Megabat Jul. 2008 (Broad/pteVam1) (pteVam1, Broad Institute pteVam1 (NCBI project 20325, ABRP01000000))
 
Track/Table Name Release Date
Ensembl Genes v75 01 Apr 2014
Ensembl Genes v73 22 Oct 2013
Ensembl Genes v72 12 Aug 2013
Initial pteVam1 release (using Broad Institute pteVam1 (NCBI project 20325, ABRP01000000)): Assembly, Gap, GC Percent, Quality Scores, Ensembl Assembly, Other RefSeq, Ensembl Genes, Genscan Genes, Megabat mRNAs, CpG Islands, Mouse Chain/Net, RepeatMasker, Interrupted Repeats, WM + SDust, Simple Repeats 16 Nov 2012

Hedgehog May 2012 (EriEur2.0/eriEur2) (eriEur2, Broad Institute EriEur2.0)
 
Track/Table Name Release Date
Initial eriEur2 release (using Broad Institute EriEur2.0): Assembly, Gap, GC Percent, INSDC, Other RefSeq, Genscan Genes, Hedgehog mRNAs, CpG Islands, Human Chain/Net, RepeatMasker, Interrupted Repeats, Simple Repeats, WM + SDust 08 May 2014

Hedgehog June 2006 (Broad/eriEur1) (eriEur1, Broad Institute eriEur1 (Draft_v1, NCBI project 12575))
 
Track/Table Name Release Date
Ensembl Genes v75 01 Apr 2014
Ensembl Genes v73 22 Oct 2013
Ensembl Genes v72 12 Aug 2013
Initial eriEur1 release (using Broad Institute eriEur1 (Draft_v1, NCBI project 12575)): Assembly, Gap, GC Percent, Quality Scores, Ensembl Assembly, Other RefSeq, Ensembl Genes, Genscan Genes, Hedgehog mRNAs, CpG Islands, Mouse Chain/Net, RepeatMasker, Interrupted Repeats, WM + SDust, Simple Repeats 08 Nov 2012
quality score fasta files 16 Jun 2009

Shrew Aug. 2008 (Broad/sorAra2) (sorAra2, Broad Institute SorAra2.0)
 
Track/Table Name Release Date
Initial sorAra2 release (using Broad Institute SorAra2.0): Assembly, Gap, GC Percent, INSDC, Genscan Genes, Other RefSeq, Shrew mRNAs, CpG Islands, Mouse Chain/Net, Human Chain/Net, Interrupted Repeats, RepeatMasker, Simple Repeats, WM + SDust 14 Jul 2014

Shrew June 2006 (Broad/sorAra1) (sorAra1, Broad Institute sorAra1 (Draft_v2))
 
Track/Table Name Release Date
Ensembl Genes v75 01 Apr 2014
Ensembl Genes v73 22 Oct 2013
Ensembl Genes v72 12 Aug 2013
Initial sorAra1 release (using Broad Institute sorAra1 (Draft_v2)): Assembly, Gap, GC Percent, Quality Scores, Ensembl Assembly, Other RefSeq, Ensembl Genes, Genscan Genes, Shrew mRNAs, CpG Islands, Mouse Chain/Net, RepeatMasker, Interrupted Repeats, WM + SDust, Simple Repeats 16 Nov 2012
quality score fasta files 16 Jun 2009

Elephant Jul. 2009 (Broad/loxAfr3) (loxAfr3, Broad Institute loxAfr3 (NCBI project 12569, AAGU03000000))
 
Track/Table Name Release Date
Ensembl Genes v74 23 Dec 2013
Genscan Genes 02 Dec 2013
Ensembl Genes v73 22 Oct 2013
Accession name at the INSDC - International Nucleotide Sequence Database Collaboration 10 Sep 2013
Ensembl Genes v72 12 Aug 2013
Ensembl Genes v65 22 Dec 2011
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

Rock hyrax Jul. 2008 (Broad/proCap1) (proCap1, Broad Institute proCap1 (NCBI project 13972, ABRQ01000000))
 
Track/Table Name Release Date
Ensembl Genes v75 01 Apr 2014
Ensembl Genes v73 22 Oct 2013
Ensembl Genes v72 12 Aug 2013
Initial proCap1 release (using Broad Institute proCap1 (NCBI project 13972, ABRQ01000000)): Assembly, Gap, GC Percent, Quality Scores, Ensembl Assembly, Other RefSeq, Ensembl Genes, Genscan Genes, CpG Islands, Mouse Chain/Net, RepeatMasker, Interrupted Repeats, WM + SDust, Simple Repeats 16 Nov 2012

Tenrec Nov. 2012 (Broad/echTel2) (echTel2, Broad/EchTel2.0)
 
Track/Table Name Release Date
Initial echTel2 release (using Broad/EchTel2.0): Assembly, Gap, GC Percent, Other RefSeq, Genscan Genes, CpG Islands, Mouse Chain/Net, Human Chain/Net, RepeatMasker, Interrupted Repeats, WM + SDust, Simple Repeats 29 Aug 2013

Tenrec July 2005 (Broad/echTel1) (echTel1, Broad July 2005)
 
Track/Table Name Release Date
CpG Islands on All Sequence (unmasked sequence CpG island track) 30 May 2014
Ensembl Genes v75 01 Apr 2014
Ensembl Genes v73 22 Oct 2013
Ensembl Genes v72 12 Aug 2013
Human Chain/Net 25 Jul 2012
Initial echTel1 release (using Broad July 2005): Assembly, Gap, GC Percent, Quality Scores, Ensembl Assembly, Genscan Genes, CpG Islands, RepeatMasker, Interrupted Repeats, Simple Repeats, WM + SDust, Other RefSeq, Ensembl Genes, TransMap Alignments, Human Chain/Net, Mouse Chain/Net 29 Jun 2012
quality score fasta files 16 Jun 2009

Manatee Oct. 2011 (Broad v1.0/triMan1) (triMan1, Broad Institute of MIT and Harvard TriManLat1.0 (GCA_000243295.1))
 
Track/Table Name Release Date
Accession name at the INSDC - International Nucleotide Sequence Database Collaboration 10 Sep 2013
Initial triMan1 release (using Broad Institute of MIT and Harvard TriManLat1.0 (GCA_000243295.1)): Assembly, Gap, GC Percent, Other RefSeq, Genscan Genes, Manatee mRNAs, Other mRNAs, CpG Islands, Mouse Chain/Net, RepeatMasker, Interrupted Repeats, WM + SDust, Simple Repeats 13 Nov 2012

Armadillo Dec. 2011 (Baylor/dasNov3) (dasNov3, Baylor College of Medicine Dasnov3.0 (GCA_000208655.2))
 
Track/Table Name Release Date
CpG Islands on All Sequence (unmasked sequence CpG island track) 30 May 2014
Ensembl Genes v74 23 Dec 2013
Accession name at the INSDC - International Nucleotide Sequence Database Collaboration 10 Sep 2013
Initial dasNov3 release (using Baylor College of Medicine Dasnov3.0 (GCA_000208655.2)): Assembly, Gap, GC Percent, Other RefSeq, Genscan Genes, Armadillo mRNAs, Other mRNAs, CpG Islands, Mouse Chain/Net, RepeatMasker, Interrupted Repeats, WM + SDust, Simple Repeats 21 Nov 2012

Sloth Jul. 2008 (Broad/choHof1) (choHof1, Broad Institute choHof1)
 
Track/Table Name Release Date
CpG Islands on All Sequence (unmasked sequence CpG island track) 30 May 2014
Ensembl Genes v75 01 Apr 2014
Ensembl Genes v73 22 Oct 2013
Ensembl Genes v72 12 Aug 2013
Initial choHof1 release (using Broad Institute choHof1): Assembly, Gap, GC Percent, Quality Scores, Ensembl Assembly, Other RefSeq, Ensembl Genes, Genscan Genes, Sloth mRNAs, Other mRNAs, CpG Islands, Mouse Chain/Net, RepeatMasker, Interrupted Repeats, WM + SDust, Simple Repeats 08 Nov 2012

Opossum Oct. 2006 (Broad/monDom5) (monDom5, Broad Institute monDom5 (NCBI project 12561, accession AAFR03000000))
 
Track/Table Name Release Date
Ensembl Genes v73 22 Oct 2013
Ensembl Genes v72 12 Aug 2013
Ensembl Genes v70 01 May 2013
White rhinoceros Chain/Net 24 Jan 2013
Lamprey Chain/Net 08 Jan 2013
Rhesus Chain/Net 03 Dec 2012
Cow Chain/Net 11 Jun 2012
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
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
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

Tasmanian devil Feb. 2011 (WTSI Devil_ref v7.0/sarHar1) (sarHar1, Wellcome Trust Sanger Institute Devil_ref v7.0 (GCA_000189315.1))
 
Track/Table Name Release Date
Ensembl Genes v73 22 Oct 2013
Accession name at the INSDC - International Nucleotide Sequence Database Collaboration 10 Sep 2013
Ensembl Genes v72 12 Aug 2013
Initial sarHar1 release (using Wellcome Trust Sanger Institute Devil_ref v7.0 (GCA_000189315.1)): Assembly, Gap, GC Percent, Short Match, Restr Enzymes, Other RefSeq, Genscan Genese, Tasmanian devil mRNAs, Other mRNAs, CpG Islands, Mouse Chain/Net, Repeat Masker, Interrupted Rpts, WM + SDust, Simple Repeats. 17 Jul 2012

Wallaby Sep. 2009 (TWGS Meug_1.1/macEug2) (macEug2, TWGS (NCBI Project ID: 12586, Accession: GCA_000004035.1))
 
Track/Table Name Release Date
Genscan Genes 02 Dec 2013
Accession name at the INSDC - International Nucleotide Sequence Database Collaboration 10 Sep 2013
Initial macEug2 release (using TWGS (NCBI Project ID: 12586, Accession: GCA_000004035.1)): Assembly, Gap, GC Percent, Short Match, Restr Enzymes, Other RefSeq, Wallaby mRNAs, Spliced ESTs, Wallaby ESTs, Other mRNAs, RepeatMasker, Interrupted Repeats, WindowMasker + SDust, Simple Repeats 23 Jan 2012

Platypus Mar. 2007 (WUGSC 5.0.1/ornAna1) (ornAna1, WUSTL version 5.0.1)
 
Track/Table Name Release Date
Ensembl Genes v75 01 Apr 2014
Ensembl Genes v73 22 Oct 2013
Ensembl Genes v72 12 Aug 2013
Ensembl Genes v70 01 May 2013
Cow Chain/Net 11 Jun 2012
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 Nov. 2011 (ICGSC Gallus_gallus-4.0/galGal4) (galGal4, ICGSC Gallus_gallus-4.0 (GCA_000002315.2))
 
Track/Table Name Release Date
Animal Quantitative Trait Loci from animalQTLdb 27 Jun 2014
Zebra finch Chain/Net 08 May 2014
Common SNPs(138), Mult. SNPs(138), All SNPs(138) 06 Mar 2014
pubsBingBlat (a run of hg19-BLAT against all webpages on the internet indexed by bing.com) 23 Jan 2014
Ensembl Genes v74 23 Dec 2013
Ensembl Genes v73 22 Oct 2013
Accession name at the INSDC - International Nucleotide Sequence Database Collaboration 10 Sep 2013
Ensembl Genes v72 12 Aug 2013
Ensembl Genes v71 11 Jun 2013
Lamprey Chain/Net 08 Jan 2013
Medium ground finch Chain/Net 17 Aug 2012
Initial galGal4 release (using ICGSC Gallus_gallus-4.0 (GCA_000002315.2)): Assembly, Gap, GC Percent, Genscan Genes, CpG Islands, RepeatMasker, Interrupted Repeats, Simple Repeats, WM + SDust, RefSeq Genes, Other RefSeq, Chicken mRNAs, Spliced ESTs, Chicken ESTs, Other mRNAs, Mouse Chain/Net 11 Jun 2012

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
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

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
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
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

Turkey Dec. 2009 (TGC Turkey_2.01/melGal1) (melGal1, TGC (NCBI Project ID: 10805, Accession: GCA_000146605.1))
 
Track/Table Name Release Date
Zebra finch Chain/Net 08 May 2014
Genscan Genes 02 Dec 2013
Ensembl Genes v73 22 Oct 2013
Accession name at the INSDC - International Nucleotide Sequence Database Collaboration 10 Sep 2013
Ensembl Genes v72 12 Aug 2013
Ensembl Genes v70 01 May 2013
Medium ground finch Chain/Net 17 Aug 2012
Ensembl Genes v65 22 Dec 2011
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

Zebra finch Feb. 2013 (WashU taeGut324/taeGut2) (taeGut2, Washington University School of Medicine)
 
Track/Table Name Release Date
Initial taeGut2 release (using Washington University School of Medicine): Assembly, Gap, GC Percent, INSDC, RefSeq Genes, Other RefSeq, Genscan Genes, Zebra finch mRNAs, Spliced ESTs, Zebra finch ESTs, CpG Islands, Turkey Chain/Net, Chicken Chain/Net, Human Chain/Net, RepeatMasker, Interrupted Repeats, Simple Repeats, WM + SDust 08 May 2014

Zebra finch Jul. 2008 (WUGSC 3.2.4/taeGut1) (taeGut1, Washington University taeGut1)
 
Track/Table Name Release Date
Ensembl Genes v75 01 Apr 2014
Ensembl Genes v73 22 Oct 2013
Ensembl Genes v72 12 Aug 2013
Medium ground finch Chain/Net 17 Aug 2012
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

Medium ground finch Apr. 2012 (GeoFor_1.0/geoFor1) (geoFor1, Beijing Genomics Institute)
 
Track/Table Name Release Date
Accession name at the INSDC - International Nucleotide Sequence Database Collaboration 10 Sep 2013
Budgerigar Chain/Net 20 Nov 2012
Initial geoFor1/Medium ground finch release (using Beijing Genomics Institute (NCBI project 13302, GCA_000277835.1)): Base Position, Assembly, Gap, GC Percent, Short Match, Restr Enzymes, Other RefSeq, Genscan Genes, Medium ground finch mRNAs, CpG Islands, Conservation (7-way), Zebra finch Chain/Net, Chicken Chain/Net, Turkey Chain/Net, Mouse Chain/Net, Human Chain/Net, Repeat Masker, Interrupted Repeats, WM + SDust, Simple Repeats. 16 Aug 2012

Budgerigar Sep. 2011 (WUSTL v6.3/melUnd1) (melUnd1, WUSTL Melopsittacus undulatus Budgerigar Version 6.3 (GCA_000238935.1))
 
Track/Table Name Release Date
Accession name at the INSDC - International Nucleotide Sequence Database Collaboration 10 Sep 2013
Initial melUnd1 release (using WUSTL Melopsittacus undulatus Budgerigar Version 6.3 (GCA_000238935.1)): Assembly, Gap, GC Percent, Short Match, Restr Enzymes, Other RefSeq, Genscan Genes, Budgerigar mRNAs, CpG Islands, Medium ground finch Chain/Net, Mouse Chain/Net, RepeatMasker, Interrupted Rpts, WM + SDust, Simple Repeats 20 Nov 2012

American alligator Aug. 2012 (allMis0.2/allMis1) (allMis1, International Crocodilian Genomes Working Group)
 
Track/Table Name Release Date
CpG Islands on All Sequence (unmasked sequence CpG island track) 30 May 2014
Initital allMis1 release (using Inter. Crocodilian Genomes Working Group allMis0.2 (NCBI project 159843, WGS AKHW01)): Assembly, Gap, GC Percent, Short Match, Restriction Enzymes, Other RefSeq, Genscan Genes, American alligator mRNAs, Spliced ESTs, American alligator ESTs, Other mRNAs, CpG Islands, Human Chain/Net, RepeatMasker, Interrupted Repeats, WM + SDust, Simple Repeats 02 Oct 2013

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
CpG Islands on All Sequence (unmasked sequence CpG island track) 30 May 2014
Ensembl Genes v75 01 Apr 2014
Genscan Genes 02 Dec 2013
Ensembl Genes v73 22 Oct 2013
Accession name at the INSDC - International Nucleotide Sequence Database Collaboration 10 Sep 2013
Ensembl Genes v72 12 Aug 2013
Ensembl Genes v71 11 Jun 2013
Ensembl Genes v70 01 May 2013
Quality Scores 15 Mar 2013
Ensembl Genes v65 22 Dec 2011
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

Painted turtle Dec. 2011 (v3.0.1/chrPic1) (chrPic1, International Painted Turtle Genome Sequencing Consortium (GCA_000241765.1))
 
Track/Table Name Release Date
CpG Islands on All Sequence (unmasked sequence CpG island track) 30 May 2014
Accession name at the INSDC - International Nucleotide Sequence Database Collaboration 10 Sep 2013
Initial chrPic1 release (using International Painted Turtle Genome Sequencing Consortium (GCA_000241765.1)): Assembly, Gap, GC Percent, Genscan Genes, CpG Islands, RepeatMasker, Interrupted Repeats, Simple Repeats, WM + SDust, Other RefSeq, Painted turtle mRNAs, Other mRNAs, Mouse Chain/Net 11 Jun 2012

X. tropicalis Nov. 2009 (JGI 4.2/xenTro3) (xenTro3, US DOE Joint Genome Institute (JGI-PGF) (GCA_000004195.1))
 
Track/Table Name Release Date
Ensembl Genes v75 01 Apr 2014
Ensembl Genes v73 22 Oct 2013
Ensembl Genes v72 12 Aug 2013
Multiz Alignment & Conservation (9 Species) 09 Dec 2011
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
pubsBingBlat (a run of hg19-BLAT against all webpages on the internet indexed by bing.com) 23 Jan 2014
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
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

Coelacanth Aug. 2011 (Broad/latCha1) (latCha1, Broad LatCha1 (GCA_000225785.1))
 
Track/Table Name Release Date
Ensembl Genes v75 01 Apr 2014
Ensembl Genes v73 22 Oct 2013
Accession name at the INSDC - International Nucleotide Sequence Database Collaboration 10 Sep 2013
Ensembl Genes v72 12 Aug 2013
Ensembl Genes v70 01 May 2013
Initial latCha1 release (using Broad LatCha1 (GCA_000225785.1)): Assembly, Gap, GC Percent, Short Match, Restr Enzymes, Other RefSeq, Ensembl Genes, Genscan Genes, Coelacanth mRNAs, Other mRNAs, CpG Islands, Fugu Chain/Net, Mouse Chain/Net, RepeatMasker, Interrupted Rpts, WM + SDust, Simple Repeats 20 Nov 2012

Tetraodon Mar. 2007 (Genoscope 8.0/tetNig2) (tetNig2, Genoscope Tetraodon v8.0 (NCBI project 12350, CAAE01000000))
 
Track/Table Name Release Date
Genscan Genes 02 Dec 2013
Ensembl Genes v73 22 Oct 2013
Ensembl Genes v72 12 Aug 2013
Fugu Chain/Net 19 Jun 2012
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
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
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
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. 2011 (FUGU5/fr3) (fr3, Fugu Genome Sequencing Consortium - FUGU5 (NCBI project 1434, GCA_000180615.2))
 
Track/Table Name Release Date
Genscan Genes 02 Dec 2013
Accession name at the INSDC - International Nucleotide Sequence Database Collaboration 10 Sep 2013
Coelacanth Chain/Net 20 Nov 2012
Atlantic cod Chain/Net 20 Nov 2012
Initial fr3/Fugu release (using Fugu Genome Sequencing Consortium - FUGU5 (NCBI project 1434, GCA_000180615.2)): Scaffolds, Gap, GC Percent, Short Match, Restr Enzymes, RefSeq Genes, Ensembl Genes (liftover from fr2), Fugu mRNAs, Spliced ESTs, Fugu ESTs, Other mRNAs, Conservation, oreNil1 Chain/Net, Tetraodon Chain/Net, Medaka Chain/Net, Stickleback Chain/Net, Zebradish Chain/Net, RepeatMasker, Interrupted Rpts, WM + SDust, Simple Repeats. 15 May 2012

Fugu Oct. 2004 (JGI 4.0/fr2) (fr2, JGI V4.0)
 
Track/Table Name Release Date
Ensembl Genes v74 23 Dec 2013
Ensembl Genes v73 22 Oct 2013
Ensembl Genes v72 12 Aug 2013
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
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
chain/net tracks to mm6 05 May 2005
Zebrafish (danRer2) Chain and Net 06 Jan 2005
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

Nile tilapia Jan. 2011 (Broad oreNil1.1/oreNil2) (oreNil2, Broad Institute of MIT and Harvard Orenil1.1 (GCA_000188235.1))
 
Track/Table Name Release Date
Accession name at the INSDC - International Nucleotide Sequence Database Collaboration 10 Sep 2013
Initial oreNil2 release (using Broad Institute of MIT and Harvard Orenil1.1 (GCA_000188235.1)): Assembly, Gap, GC Percent, Other RefSeq, Genscan Genes, Nile tilapia mRNAs, Spliced ESTs, Nile tilapia ESTs, CpG Islands, Mouse Chain/Net, RepeatMasker, Interrupted Repeats, WM + SDust, Simple Repeats 21 Nov 2012

Stickleback Feb. 2006 (Broad/gasAcu1) (gasAcu1, Broad Institute gasAcu1 (1.0) (NCBI project 13579, AANH01000000))
 
Track/Table Name Release Date
Ensembl Genes v75 01 Apr 2014
Ensembl Genes v74 23 Dec 2013
Genscan Genes 02 Dec 2013
Ensembl Genes v73 22 Oct 2013
Ensembl Genes v72 12 Aug 2013
Ensembl Genes v71 11 Jun 2013
Fugu Chain/Net 19 Jun 2012
Ensembl Genes v65 22 Dec 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
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
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 v75 01 Apr 2014
pubsBingBlat (a run of hg19-BLAT against all webpages on the internet indexed by bing.com) 23 Jan 2014
Genscan Genes 02 Dec 2013
Ensembl Genes v73 22 Oct 2013
Ensembl Genes v72 12 Aug 2013
Ensembl Genes v70 01 May 2013
Lamprey Chain/Net 08 Jan 2013
Fugu Chain/Net 19 Jun 2012
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

Atlantic cod May 2010 (Genofisk GadMor_May2010/gadMor1) (gadMor1, Genofisk GadMor_May2010 (GCA_000231765.1))
 
Track/Table Name Release Date
Ensembl Genes v75 01 Apr 2014
Ensembl Genes v73 22 Oct 2013
Accession name at the INSDC - International Nucleotide Sequence Database Collaboration 10 Sep 2013
Ensembl Genes v72 12 Aug 2013
Initial gadMor1 release (using Genofisk GadMor_May2010 (GCA_000231765.1)): Assembly, Gap, GC Percent, Short Match, Restr Enzymes, Other RefSeq, Genscan Genes, Atlantic cod mRNAs, Spliced ESTs, Atlantic cod ESTs, CpG Islands, Fugu Chain/Net, Mouse Chain/Net, RepeatMasker, Interrupted Rpts, WM + SDust, Simple Repeats 20 Nov 2012

Zebrafish Jul. 2010 (Zv9/danRer7) (danRer7, Wellcome Trust Sanger Institute Zv9 (GCA_000002035.2))
 
Track/Table Name Release Date
CpG Islands on All Sequence (unmasked sequence CpG island track) 30 May 2014
Ensembl Genes v75 01 Apr 2014
pubsBingBlat (a run of hg19-BLAT against all webpages on the internet indexed by bing.com) 23 Jan 2014
Ensembl Genes v74 23 Dec 2013
Genscan Genes 02 Dec 2013
Ensembl Genes v73 22 Oct 2013
Accession name at the INSDC - International Nucleotide Sequence Database Collaboration 10 Sep 2013
Ensembl Genes v72 12 Aug 2013
Ensembl Genes v71 11 Jun 2013
Ensembl Genes v70 01 May 2013
Fugu Chain/Net 19 Jun 2012
GRC Incident 17 Apr 2012
Ensembl Genes v65 22 Dec 2011
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
CpG Islands on All Sequence (unmasked sequence CpG island track) 30 May 2014
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
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 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
Radiation Hybrid Map 07 May 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
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
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
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

Elephant shark Dec. 2013 (Callorhinchus_milii-6.1.3/calMil1) (calMil1, Institute of Molecular and Cell Biology, Singapore)
 
Track/Table Name Release Date
Initial calMil1 release (using Institute of Molecular and Cell Biology, Singapore): Assembly, Gap, GC Percent, INSDC, Restr Enzymes, Short Match, Genscan Genes, Other RefSeq, Elephant shark ESTs, Elephant shark mRNAs, Spliced ESTs, CpG Islands, RepeatMasker, Interrupted Rpts, Simple Repeats, WM + SDust 09 May 2014

Lamprey Sep. 2010 (WUGSC 7.0/petMar2) (petMar2, GSC Washington University School of Medicine)
 
Track/Table Name Release Date
Lamprey Genes 13 Jun 2014
Ensembl Genes v73 22 Oct 2013
Accession name at the INSDC - International Nucleotide Sequence Database Collaboration 10 Sep 2013
Ensembl Genes v72 12 Aug 2013
Ensembl Genes v70 01 May 2013
Initial petMar2 release (using GSC Washington University School of Medicine): Assembly, Gap, GC Percent, Other RefSeq, Genscan Genes, Lamprey mRNAs, Spliced ESTs, Lamprey ESTs, CpG Islands, Conservation, Medaka Chain/Net, Chicken Chain/Net, Opossum Chain/Net, Mouse Chain/Net, Human Chain/Net, Lancelet Chain/Net, RepeatMasker, Interrupted Repeats, WM + SDust, Simple Repeats 08 Jan 2013

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

Sea hare Sept. 2008 (Broad 2.0/aplCal1) (aplCal1, Broad v. Aplcal2.0)
 
Track/Table Name Release Date
CpG Islands on All Sequence (unmasked sequence CpG island track) 30 May 2014
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

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
pubsBingBlat (a run of hg19-BLAT against all webpages on the internet indexed by bing.com) 23 Jan 2014
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
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

C. elegans Oct. 2010 (WS220/ce10) (ce10, Washington University School of Medicine GSC and Sanger Institute WS220)
 
Track/Table Name Release Date
pubsBingBlat (a run of hg19-BLAT against all webpages on the internet indexed by bing.com) 23 Jan 2014
Human Proteins 12 Jul 2012
Initial ce10 release (using Washington University School of Medicine GSC and Sanger Institute WS220): Assembly, Gap, GC Percent, Ensembl Genes v65, RefSeq Genes, Other RefSeq, C. elegans mRNAs, Spliced ESTs, C. elegans ESTs, Other mRNAs, Conservation, RepeatMasker, Interrupted Repeats, Simple Repeats 05 Jan 2012

C. elegans May 2008 (WS190/ce6) (ce6, Washington University School of Medicine GSC and Sanger Institute WS190)
 
Track/Table Name Release Date
Ensembl Genes v73 22 Oct 2013
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 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
Geneid Gene Predictions 24 Mar 2005
Conservation, Most Conserved 17 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
tRNA Genes 15 Mar 2012
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 v75 01 Apr 2014
pubsBingBlat (a run of hg19-BLAT against all webpages on the internet indexed by bing.com) 23 Jan 2014
Ensembl Genes v73 22 Oct 2013
Ensembl Genes v72 12 Aug 2013
Ensembl Genes v70 01 May 2013
Human Proteins 12 Jul 2012
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
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 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

D. melanogaster Apr. 2004 (BDGP R4/dm2) (dm2, BDGP v. 4 / DHGP v. 3.2)
 
Track/Table Name Release Date
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
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
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
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
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
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
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
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
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
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
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
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
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
Added alignments of non-coding RNAs (NR_*) to RefSeq and Xeno-RefSeq tracks. 27 Oct 2008
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
D.mel. Proteins (data update to dm2) 27 Jul 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
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
AnoEST Unique and Non-Unique (TCLAG*: Clustered A. gambiae ESTs) 08 Jun 2005
GC Percent 22 Oct 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
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
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
Ensembl Genes v73 22 Oct 2013
Ensembl Genes v72 12 Aug 2013
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
pubsBingBlat (a run of hg19-BLAT against all webpages on the internet indexed by bing.com) 23 Jan 2014
Ensembl Genes v73 22 Oct 2013
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

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
Ensembl Genes v52 29 Jan 2009
Ensembl gene update (version 50) 19 Aug 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
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