|
10 Latest Changes (all assemblies) |
|
|---|
| |
| Track/Table Name |
Assembly |
Release Date |
|
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. |
caeJap1 |
27 Jun 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. |
caeRem3 |
20 Jun 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. |
caePb2 |
20 Jun 2008 |
|
Gene Trap (data update 06-01-2008) |
mm7, mm8, mm9 |
13 Jun 2008 |
|
Guinea Pig Chain and Net |
rn4 |
11 Jun 2008 |
|
Guinea Pig Chain and Net |
monDom4 |
11 Jun 2008 |
|
Guinea Pig Chain and Net |
mm9 |
11 Jun 2008 |
|
Guinea Pig Chain and Net |
hg18 |
11 Jun 2008 |
|
Guinea Pig Chain and Net |
galGal3 |
11 Jun 2008 |
|
Initial cavPor3 release (using Broad Institute cavPor3) |
cavPor3 |
11 Jun 2008 |
| |
|
|
|
Human Mar. 2006 (hg18, NCBI Build 36.1) |
|
|---|
| |
| Track/Table Name |
Release Date
|
|
Guinea Pig Chain and Net |
11 Jun 2008 |
|
Lamprey Chain/Net/LiftOver (petMar1) |
10 Jun 2008 |
|
Lancelet Chain/Net/LiftOver (braFlo1) |
10 Jun 2008 |
|
C/D and H/ACA Box snoRNAs, scaRNAs, and microRNAs from snoRNABase and miRBase (track update) |
05 Jun 2008 |
|
Vega Genes - Vega Annotations, Vega Annotated Pseudogenes and Immunoglobulin Segments |
04 Jun 2008 |
|
Agilent Catalog Oligonucleotide CGH Microarray probesets |
04 Jun 2008 |
|
Update of CCDS annotations |
04 Jun 2008 |
|
Marmoset Chain/Net/LiftOver (calJac1) |
24 Apr 2008 |
|
Affymetrix ENCODE Extension Transcription Sites & Signal |
16 Apr 2008 |
|
Ensembl v49 gene predictions |
15 Apr 2008 |
|
Chain track, Net track, and liftOver file to bosTau4 |
08 Apr 2008 |
|
UCSC Genes link to Allen Institute for Brain Science - Gene Expression in the Human Cortex website |
20 Mar 2008 |
|
SNPs (dbSNP build 128) |
11 Mar 2008 |
|
Adds a link to HuGE database from Known Gene details page. |
06 Mar 2008 |
|
HapMap Linkage Disequilibrium - Phase II - from phased genotypes (replaces the HapMap LD Unphased track) |
29 Feb 2008 |
|
Updated with CCDS genes (as of 2008-02-01) |
12 Feb 2008 |
|
Genetic Association Studies of Complex Diseases and Disorders (data update) |
16 Jan 2008 |
|
Link to SeattleSNPs PGA database from UCSC Genes page |
08 Jan 2008 |
|
Link to geneTests database from UCSC Genes page |
08 Jan 2008 |
|
CCDS update (as of 2007-12-12) |
20 Dec 2007 |
|
encodeAffyEcSignal |
13 Dec 2007 |
|
encodeAffyEcSites |
13 Dec 2007 |
|
Affy Tx sRNA Sig (lifted from hg17) |
12 Dec 2007 |
|
Affy Tx sRNA Reg (lifted from hg17) |
12 Dec 2007 |
|
Affy Tx lRNA Sig (lifted from hg17) |
12 Dec 2007 |
|
Affy Tx lRNA Reg (lifted from hg17) |
12 Dec 2007 |
|
HapMap LD Unph. |
07 Dec 2007 |
|
NIMH Bipolar Disease track (and Genome Graphs built-in data) |
20 Nov 2007 |
|
Case Control Consortium track (and Genome Graphs built-in data) |
20 Nov 2007 |
|
ORegAnno track update |
07 Nov 2007 |
|
Uppsala ChIP |
01 Nov 2007 |
|
TargetScan miRNA Regulatory Sites |
01 Nov 2007 |
|
Zebrafish Chain/Net/LiftOver (danRer5) |
29 Oct 2007 |
|
Vista HMR-Conserved Non-coding Human Enhancers from LBNL updated. |
26 Oct 2007 |
|
lift rnaGene from hg17 |
24 Oct 2007 |
|
ENCODE NHGRI DIPs (lift from hg17) |
23 Oct 2007 |
|
Updated mouse column in Gene Sorter and in Orthologous Genes section of gene details pages to mm9 UCSC Genes |
19 Oct 2007 |
|
SNP Array Affy 6 (data update) |
17 Oct 2007 |
|
Added CONTRAST gene predictions |
17 Oct 2007 |
|
Whole-Genome ENCODE LI/UCSD TAF1 Super Track |
17 Oct 2007 |
|
N-SCAN PASA-EST subtrack (corrected naming scheme) |
16 Oct 2007 |
|
Human Quantitative Trait Loci from RGD |
15 Oct 2007 |
|
wgRna (new miRnas added) |
15 Oct 2007 |
|
SGP Gene Predictions Using Mouse/Human Homology (data update) |
15 Oct 2007 |
|
Gencode RACEfrags (strand information added) |
12 Oct 2007 |
|
BU OrChID |
12 Oct 2007 |
|
ENCODE data migration from hg17 |
08 Oct 2007 |
|
Interrupted Rpts |
01 Oct 2007 |
|
GIS PET RNA and GIS ChIP-PET tracks: lifted from hg17 and moved out of Encode to group Expression and Regulation.
Added 3 new subtracks:
wgEncodeGisChipPetHes3H3K27me3 (belongs to wgEncodeGisChipPetAll)
wgEncodeGisChipPetHes3H3K4me3 (belongs to wgEncodeGisChipPetAll)
wgEncodeGisRnaPetHes3 (belongs to wgEncodeGisRnaPet) |
28 Sep 2007 |
|
Swiss Institute of Bioinformatics, SIB Genes initial release |
25 Sep 2007 |
|
Swiss Institute of Bioinformatics Alt-Splicing initial release. |
25 Sep 2007 |
|
Intron Size column for Gene Sorter |
21 Sep 2007 |
|
CDS Score column for Gene Sorter |
17 Sep 2007 |
|
Gene Category column for Gene Sorter |
17 Sep 2007 |
|
Adding Coding SNP column to gene sorter |
13 Sep 2007 |
|
update to 7X Reg Potential to fix missing data for chroms 3,4,9,10,20,21 |
07 Sep 2007 |
|
FISH Clones (data update) |
06 Sep 2007 |
|
Initial dm3 Regulatory elements from Open Regulatory Annotation (ORegAnno) release; updated hg18 ORegAnno track |
06 Sep 2007 |
|
AceView Genes (replacing the initial data which was liftOver'd from hg17) |
05 Sep 2007 |
|
Gene Boundaries as Defined by RNA and Spliced EST Clusters |
30 Aug 2007 |
|
Mouse (mm9) Chain and Net tracks and liftOver file |
28 Aug 2007 |
|
Updated Drosophila column in Gene Sorter from dm2 to dm3 FlyBase genes |
28 Aug 2007 |
|
SNP Arrays |
02 Aug 2007 |
|
HMR Conserved Transcription Factor Binding Sites (data update) |
20 Jul 2007 |
|
removed "e-rows" from the upstream MAF files |
09 Jul 2007 |
|
Augustus |
09 Jul 2007 |
|
HapMap SNPs |
09 Jul 2007 |
|
N-SCAN composite track: ab-inito, PASA cDNA clusters |
02 Jul 2007 |
|
SwitchGear Genomics Transcription Start Sites |
27 Jun 2007 |
|
Most Conserved |
25 Jun 2007 |
|
Conservation (28 vertebrate alignment) |
25 Jun 2007 |
|
CGAP SAGE |
15 Jun 2007 |
|
sno/miRNA(wgRna)-data update |
31 May 2007 |
|
Structural Variation (9 subtracks) |
08 May 2007 |
|
Eponine Predicted Transcription Start Sites |
03 May 2007 |
|
Clones from genbank ORFeome collaboration. |
02 May 2007 |
|
Exapted Repeats (Conserved non-exonic regions that were deposited by mobile elements) |
30 Apr 2007 |
|
ORegAnno track update |
30 Apr 2007 |
|
Locus Variants update (new LSDBs added, old ones updated) |
27 Apr 2007 |
|
Update of dmBlastTab tables (to dm2) to coincide with Fly Base v4.3 Genes |
20 Apr 2007 |
|
ACEScan Alternate exon finder |
12 Apr 2007 |
|
Chains Nets and liftOvers to fr2 |
11 Apr 2007 |
|
Update of hg18 xxBlastTab tables to coincide with UCSC Genes |
06 Apr 2007 |
|
Alt Events |
06 Apr 2007 |
|
Old Known Genes |
06 Apr 2007 |
|
UCSC Genes |
06 Apr 2007 |
|
Added initial hg18 CCDS release, updated hg17 CCDS |
12 Mar 2007 |
|
synteny-filter update for xxBlastTab for HMR (hg18, hg17, mm8, mm7, rn4) |
27 Feb 2007 |
|
Locus Variants (Jan 2007 snapshot) |
20 Feb 2007 |
|
sno/miRNA(wgRna)-data update |
13 Feb 2007 |
|
Added NCBI Clone Validation information to details of MGC genes |
12 Jan 2007 |
|
Exoniphy |
13 Dec 2006 |
|
AceView Genes (lifted from hg17) |
08 Dec 2006 |
|
SNP Alignment Display |
01 Dec 2006 |
|
Updated HMR Conserved Transcription Factor Binding Sites |
20 Nov 2006 |
|
Coverage track reworked to be more accurate |
20 Nov 2006 |
|
Yale Transcriptionally Active Regions (TARs) (Bertone data) |
07 Nov 2006 |
|
HMR Conserved Transcription Factor Binding Sites |
03 Nov 2006 |
|
Regulatory elements from Open Regulatory Annotation (ORegAnno) |
03 Nov 2006 |
|
AffyHuEx1.0 (Probe Set locations for Affymetrix Human Exon Genechip) |
24 Oct 2006 |
|
Locus Variants (Sept 2006 snapshot) |
24 Oct 2006 |
|
SNPs (new function data from dbSNP) |
09 Oct 2006 |
|
Update to UCSC Known Genes color coding scheme |
03 Oct 2006 |
|
poly(A) DB |
03 Oct 2006 |
|
Protein to Protein Interaction Network by Erich Wanker (Gene Sorter column) |
18 Aug 2006 |
|
Protein to Protein Interaction Network by Marc Vidal (Gene Sorter column) |
18 Aug 2006 |
|
Exon Primer links in Known Genes |
11 Aug 2006 |
|
Self Net downloads |
02 Aug 2006 |
|
Segmental Dups |
01 Aug 2006 |
|
Microsatellite Track: Di-nucleotide and Tri-nucleotide Repeats |
01 Aug 2006 |
|
Update to BAC End Pairs track, recovering previously filtered BAC Ends |
28 Jul 2006 |
|
gene prediction peptide tables |
24 Jul 2006 |
|
Rat Ortholog column of Gene Sorter and Known Gene details updated to rn4 |
20 Jul 2006 |
|
SNP build 126 |
30 Jun 2006 |
|
EvoFold (changed documentation on description page) |
29 Jun 2006 |
|
Superfamily track |
27 Jun 2006 |
|
Human Chained Self Alignments |
27 Jun 2006 |
|
regPotential7X data download files for hg18, hg17, mm8, mm7 |
26 Jun 2006 |
|
ESPERR Regulatory Potential (7 species) |
22 Jun 2006 |
|
EvoFold (lifted from hg17, weak predictions filtered out) |
21 Jun 2006 |
|
Updated frame annotation for Conservation track to fix error with spliced codons
|
15 Jun 2006 |
|
Known Genes: added link to Ensembl Transcripts |
05 Jun 2006 |
|
Human Proteins |
31 May 2006 |
|
wgRna -data update May 2006 |
24 May 2006 |
|
First Exon Finder |
18 May 2006 |
|
Geneid Gene Predictions |
11 May 2006 |
|
H-Inv DB link from Known Gene page |
09 May 2006 |
|
Initial hg18 release (using NCBI Build 36.1): Chromosome Band; STS Markers; FISH Clones; Recomb Rate; Map Contigs; Assembly; Gap; Coverage; BAC End Pairs; Fosmid End Pairs; GC Percent; Known Genes; Proteome Browser; Gene Sorter; Human and NonHuman RefSeq Genes; MGC Genes; N-SCAN Genes; Genscan Genes; sno/miRNA, Human and NonHuman mRNAs; Spliced ESTs; Human and NonHuman ESTs; H-Inv Genes; Repeat Masker; Simple Repeats; Allen Brain; GNF Atlas2; GNF Ratio; CpG Islands; Affy: U133, U133Plus2, U95, GNF1H.
Conservation; Most Conserved; Chains & Nets: Fugu, Tetraodon, Zebrafish, X. tropicalis, Chicken, Cow, Dog, Rat, Mouse, Rhesus, Chimp; RepeatMasker; Simple Repeats.
Downloads: bigZips, chromosomes, database, liftOvers, multiz, phastCons. |
14 Apr 2006 |
| |
|
|
|
Human May 2004 (hg17, NCBI Build 35) |
|
|---|
| |
| Track/Table Name |
Release Date
|
|
Affymetrix ENCODE Extension Transcription Sites & Signal |
16 Apr 2008 |
|
Adds a link to HuGE database from Known Gene details page. |
06 Mar 2008 |
|
Updated with CCDS genes (as of 2008-02-01) |
12 Feb 2008 |
|
HapMap SNPs. Data correction of chimp orthologous alleles. |
06 Feb 2008 |
|
Link to geneTests database from UCSC Genes page |
08 Jan 2008 |
|
CCDS update (as of 2007-12-12) |
17 Dec 2007 |
|
Affy Tx sRNA Sig ( renamed tables and files to fix the missing track ) |
11 Dec 2007 |
|
NIMH Bipolar Disease track (and Genome Graphs built-in data) |
20 Nov 2007 |
|
Case Control Consortium track (and Genome Graphs built-in data) |
20 Nov 2007 |
|
Vista HMR-Conserved Non-coding Human Enhancers from LBNL updated. |
26 Oct 2007 |
|
ENCODE TBA SCONE Conservation (Update) |
19 Oct 2007 |
|
update to 7X Reg Potential to fix missing data for chroms 4,8,9 |
07 Sep 2007 |
|
ENCODE UC Davis ChIP-chip NimbleGen (E2F1, c-Myc, TAF, POLII) |
24 Jul 2007 |
|
ENCODE Yale ChIP-chip Sites - Jun07 batch |
13 Jul 2007 |
|
ENCODE Yale ChIP-chip Sig - Jun07 batch |
13 Jul 2007 |
|
ENCODE Yale ChIP-chip Pval - Jun07 batch |
13 Jul 2007 |
|
ENCODE Yale ChIP-chip Sites - Apr07 batch |
13 Jul 2007 |
|
ENCODE Yale ChIP-chip Sig - Apr07 batch |
13 Jul 2007 |
|
ENCODE Yale ChIP-chip Pval - Apr07 batch |
13 Jul 2007 |
|
ENCODE Yale ChIP-chip Sites - Update to Jan07 batch |
13 Jul 2007 |
|
ENCODE Yale ChIP-chip Sig - Jan07 batch |
13 Jul 2007 |
|
ENCODE Yale ChIP-chip Pval - Jan07 batch |
13 Jul 2007 |
|
ENCODE Yale ChIP-chip Sites Update to Nov06 batch |
13 Jul 2007 |
|
ENCODE Yale ChIP-chip Sig - Nov06 batch |
13 Jul 2007 |
|
ENCOE Yale ChIP-chip Pval - Nov06 batch |
13 Jul 2007 |
|
removed "e-rows" from the upstream MAF files |
09 Jul 2007 |
|
SwitchGear Genomics Transcription Start Sites |
27 Jun 2007 |
|
HapMap SNPs. Data correction. |
25 Jun 2007 |
|
Affy Tx sRNA Sig |
19 Jun 2007 |
|
Affy Tx lRNA Sig |
19 Jun 2007 |
|
Affy Tx sRNA Reg |
19 Jun 2007 |
|
Affy Tx lRNA Reg |
19 Jun 2007 |
|
ENCODE University of Virginia DNA Replication Origins (data update) |
30 May 2007 |
|
ENCODE Duke Dnase/chip - Feb07 batch (data addition) |
21 May 2007 |
|
HapMap SNPs |
19 May 2007 |
|
ENCODE Gencode RACEfrags |
18 May 2007 |
|
ENCODE Gencode Gene Annotations (March 2007) |
04 May 2007 |
|
Eponine Predicted Transcription Start Sites |
03 May 2007 |
|
Structural Variation: new subtrack for Redon data |
02 May 2007 |
|
Structural Variation: data correction for Conrad subtrack |
02 May 2007 |
|
Clones from genbank ORFeome collaboration. |
02 May 2007 |
|
Locus Variants update (new LSDBs added, old ones updated) |
27 Apr 2007 |
|
Update 3 subtracks with missing data |
17 Apr 2007 |
|
ENCODE UCD Ng ChIP Hits (update of cMyc and E2F1 data) |
17 Apr 2007 |
|
Vista HMR-Conserved Non-coding Human Enhancers from LBNL |
12 Apr 2007 |
|
ACEScan Alternate exon finder |
12 Apr 2007 |
|
Augustus Gene Predictions (two subtracks: Hints, and de novo). This composite track replaces the Augustus ab initio track. |
12 Apr 2007 |
|
Added initial hg18 CCDS release, updated hg17 CCDS |
12 Mar 2007 |
|
synteny-filter update for xxBlastTab for HMR (hg18, hg17, mm8, mm7, rn4) |
27 Feb 2007 |
|
ENCODE Yale RFBR (Regulatory Factor Binding Regions) |
21 Feb 2007 |
|
Locus Variants (Jan 2007 snapshot) |
20 Feb 2007 |
|
ENCODE: UCSC EvoFold (Encode predictions analyzed in Washietl, Pedersen, et al., 2007). Replaces TBA23 EvoFold data. |
13 Feb 2007 |
|
ENCODE - University of Vienna, RNA secondary structure predicted by RNAz |
16 Jan 2007 |
|
Added NCBI Clone Validation information to details of MGC genes |
12 Jan 2007 |
|
ENCODE Yale RNA (update with October 2005 freeze data) |
10 Jan 2007 |
|
ENCODE UW/Reg QCP DNaseI Sens (replaces the following three tracks: UW/Reg DNaseI HSs, UW/Reg Q/A, UW DNase GM) |
07 Dec 2006 |
|
ENCODE Duke/NHGRI DNase (New Chip method in HepG2, Hela, GM, and CD4+) |
05 Dec 2006 |
|
SNP Alignment Display |
01 Dec 2006 |
|
ENCODE UT-Austin STAGE (update to add STAT1 tags) |
29 Nov 2006 |
|
Markers greater than 5,000 nt were removed. |
14 Nov 2006 |
|
ENCODE GIS Chip-PET (P53 in HCT116, STAT1 in HeLa, c-Myc in P493) |
07 Nov 2006 |
|
Yale Transcriptionally Active Regions (TARs) (Bertone data) |
07 Nov 2006 |
|
HMR Conserved Transcription Factor Binding Sites (data reloaded) |
06 Nov 2006 |
|
Locus Variants (Sept 2006 snapshot) |
24 Oct 2006 |
|
ENCODE NHGRI/PSU/UCSC TBA Conserved Elements |
05 Oct 2006 |
|
ENCODE NHGRI/PSU/UCSC TBA Conservation |
05 Oct 2006 |
|
ENCODE NHGRI/PSU TBA Alignments |
05 Oct 2006 |
|
ENCODE MSA Consensus Constrained Elements |
04 Oct 2006 |
|
ENCODE UC Berkeley MAVID Alignments |
04 Oct 2006 |
|
ENCODE UC Berkeley MAVID Conservation |
04 Oct 2006 |
|
ENCODE UC Berkeley MAVID Conserved Elements |
04 Oct 2006 |
|
ENCODE Stanford MLAGAN Conserved Elements |
04 Oct 2006 |
|
ENCODE Stanford MLAGAN Conservation |
04 Oct 2006 |
|
ENCODE Stanford MLAGAN Alignments |
04 Oct 2006 |
|
ENCODE MSA Alignment Gaps |
04 Oct 2006 |
|
ENCODE MSA Alignment Agreement |
04 Oct 2006 |
|
SNP Arrays |
03 Oct 2006 |
|
Update to UCSC Known Genes color coding scheme |
03 Oct 2006 |
|
Update CCDS to 2006-09-20 snapshot |
22 Sep 2006 |
|
CCDS (annotation update) |
29 Aug 2006 |
|
Retrotransposon Insertion Polymorphisms in Humans |
23 Aug 2006 |
|
ENCODE UNC FAIRE track (data update) |
21 Aug 2006 |
|
Protein to Protein Interaction Network by Erich Wanker (Gene Sorter column) |
18 Aug 2006 |
|
Protein to Protein Interaction Network by Marc Vidal (Gene Sorter column) |
18 Aug 2006 |
|
update CCDS to 2006-08-15 snapshot |
17 Aug 2006 |
|
8 new subtracks for ENCODE Sanger ChIP-chip track |
17 Aug 2006 |
|
Microsatellite Track: Di-nucleotide and Tri-nucleotide Repeats |
01 Aug 2006 |
|
Structural Variation |
28 Jul 2006 |
|
Rat Chain/Net(rn4) |
13 Jul 2006 |
|
EvoFold (changed documentation on description page) |
29 Jun 2006 |
|
regPotential7X data download files for hg18, hg17, mm8, mm7 |
26 Jun 2006 |
|
ENCODE University of Uppsala, Sweden ChIP-chip Na-butyrate time series |
26 Jun 2006 |
|
ESPERR Regulatory Potential (7 species) |
22 Jun 2006 |
|
ENCODE UNC FAIRE Peaks (ChIPOTle) Apr. 2006 Update, new subtrack added to UNC FAIRE |
15 Jun 2006 |
|
Updated frame annotation for Conservation track to fix error with spliced codons |
15 Jun 2006 |
|
Dog Chain/Net/LiftOver(canFam2), regenerated with better parameters |
15 Jun 2006 |
|
Human Disease Variants and Other Mutations |
14 Jun 2006 |
|
ENCODE UW DNase/Array GM06990 |
13 Jun 2006 |
|
ENCODE Sanger ChIP (additional data in HFL-1 cell line) |
24 May 2006 |
|
ENCODE Detection of LinEage Specific Selection (DLESS) |
19 May 2006 |
|
SNP build 125 |
01 May 2006 |
|
MicroRNA target sites in 3' UTRs as predicted by PicTar |
27 Apr 2006 |
|
Most Conserved - data update |
27 Apr 2006 |
|
Conservation - Data Update (fix overlaps) |
27 Apr 2006 |
|
Most Conserved (correction to make rhesus non-informative) |
28 Mar 2006 |
|
Conservation - Data Update (rhesus made non-informative) |
22 Mar 2006 |
|
VisiGene (Allen Brain Atlas) |
17 Mar 2006 |
|
BosTau2, DanRer3 chains/net/liftOver |
15 Mar 2006 |
|
Most Conserved (17-way alignment phastCons conserved elements) |
10 Mar 2006 |
|
Conservation (17-way vertebrate multiple alignment) |
10 Mar 2006 |
|
RheMac2 chain/net/liftOver |
06 Mar 2006 |
|
sno/miRNA (wgRna) |
21 Feb 2006 |
|
HapMap LD (release 20) |
21 Feb 2006 |
|
Improved searching capability for VisiGene |
16 Feb 2006 |
|
Improved searching capability for Known Genes |
03 Feb 2006 |
|
gladHumESDistance (data update) |
01 Feb 2006 |
|
Superfamily (data update) |
30 Jan 2006 |
|
Comparatives downloads (replacements for overlapping axtNet alignments) |
18 Jan 2006 |
|
ENCODE Yale ChIP Sites (data replaced with 5 new transcription factors). Previous track Yale ChIP Sites renamed Yale STAT1 Sites. |
13 Jan 2006 |
|
ENCODE Yale ChIP Signal (data replaced with 5 new transcription factors). Previous track Yale ChIP Signal renamed Yale STAT1 Signal. |
13 Jan 2006 |
|
ENCODE Yale ChIP pVal (data replaced with 5 new transcription factors). Previous track Yale ChIP pVal renamed Yale STAT1 pVal. |
13 Jan 2006 |
|
ENCODE EGASP Full (Correction) |
12 Jan 2006 |
|
Hgdownloads update: goldenPath/hg17/vs{PanTro1,CanFam1,Fr1,DanRer1,Mm5}/axtNet/{chr5.axt.gz,md5sum.txt} |
12 Jan 2006 |
|
ENCODE EGASP Partial (data correction) |
11 Jan 2006 |
|
Recomb Hotspots: ENCODE recombination hotspots and rates |
06 Jan 2006 |
|
Updated hg17 -> mm6 liftOver (Downloads, Batch Coordinate Conversion utility) |
06 Jan 2006 |
|
Recomb Rates and Hotspots: from HapMap and Perlegen data |
04 Jan 2006 |
|
LiftOvers: fr1, tetNig1, xenTro1, galGal2, bosTau2, rheMac1, panTro1, hg17, rn3 -> mm7; fr1, tetNig1, xenTro1, galGal2, panTro1 -> mm6; galGal2 -> danRer2, mm5, hg17, monDom1, tetNig1, xenTro1; rheMac1 -> hg17; panTro1 -> hg16, hg17 |
03 Jan 2006 |
|
ENCODE Uppsala Chip (University of Uppsala, Sweden ChIP-chip coordinate corrections) |
03 Jan 2006 |
|
ENCODE Yale TAR (Replace June data with new methods) |
02 Jan 2006 |
|
ENCODE UVa DNA Rep Ori (University of Virginia DNA Replication Origins, Oct 2005 Freeze) |
29 Dec 2005 |
|
ENCODE UT-Austin STAGE (Sequence Tag Analysis of Genomic Enrichment), c-Myc in HeLa cells |
28 Dec 2005 |
|
Dog Chain/Net/LiftOver (canFam2) |
22 Dec 2005 |
|
ENCODE Affy Transfrags (updated HeLa data) |
21 Dec 2005 |
|
ENCODE Affy RNA Signal (updated HeLa data) |
21 Dec 2005 |
|
Cow Synteny |
20 Dec 2005 |
|
mRNA, RefSeq mRNA, and native ESTs: Realigned and filtered
-- improvements in process. |
16 Dec 2005 |
|
ENCODE UVa DNA Rep TR50 (University of Virginia DNA Smoothed Timing at 50% Replication, Oct 2005 Freeze) |
16 Dec 2005 |
|
ENCODE UVa DNA Rep Seg (University of Virginia DNA Replication Temporal Segmentation, Oct 2005 Freeze) |
02 Dec 2005 |
|
ENCODE Sanger ChIP Hits (Peaks and Centers, Oct 2005 Freeze) |
22 Nov 2005 |
|
ENCODE Sanger ChIP (H3, H4 histones in GM, K562 and HeLa cells, Oct 2005 Freeze) |
22 Nov 2005 |
|
ENCODE UNC FAIRE (Formaldehyde Assisted Isolation of Regulatory Elements, Oct 2005 Freeze)
|
22 Nov 2005 |
|
ENCODE UCD Ng ChIP (UC Davis ChIP-chip of E2F1, Myc in HeLa, Oct 2005 Freeze) |
18 Nov 2005 |
|
ENCODE Uppsala Chip (University of Uppsala, Sweden ChIP-chip of H3ac,HNF3b,HNF4a,USF1 in HepG2 cells, Oct 2005 Freeze) |
18 Nov 2005 |
|
ENCODE Affy Strict Sites (Affymetrix ChIP-chip of 5 factors in HL60 cells, Oct 2005 Freeze) |
18 Nov 2005 |
|
ENCODE Affy Strict (Affymetrix ChIP-chip of 5 factors in HL60 cells, Oct 2005 Freeze) |
18 Nov 2005 |
|
ENCODE Affy Strict Pval (Affymetrix ChIP-chip on 5 factors, in HL60 cells, Oct 2005 Freeze) |
18 Nov 2005 |
|
Allen Brain Atlas Images |
10 Nov 2005 |
|
ENCODE Affy RNA (RNA abundance and transfrags, Oct 2005 Freeze) |
07 Nov 2005 |
|
ENCODE UT-Austin ChIP (c-Myc and EF24 in HeLa and 20901 fibroblasts, Oct 2005 Freeze) |
07 Nov 2005 |
|
ENCODE NHGRI DnaseI-HS (MPSS and Chip methods, in CD4 and GM09660, Oct 2005 Freeze) |
07 Nov 2005 |
|
ENCODE GIS PET RNA (update Oct 2005 Freeze and new estrogen-treated MCF7) |
07 Nov 2005 |
|
ENODE Genocde Introns (Oct 2005 Freeze) |
07 Nov 2005 |
|
ENCODE Gencode Genes (Oct 2005 Freeze) |
07 Nov 2005 |
|
Gladstone arrays -- track and Gene Sorter columns |
04 Nov 2005 |
|
sno/miRNA (data update) |
27 Oct 2005 |
|
ENCODE LI Ng gIF ChIP (Addition of 5 antibodies, in HeLa cells) |
27 Oct 2005 |
|
Oxford Recombination Hotspots (from HapMap phase I, release 16a) |
25 Oct 2005 |
|
Oxford Recombination Rates (from HapMap phase I, release 16a) |
25 Oct 2005 |
|
ENCODE EGASP Update (Add Fgenesh++ corrected predictions) |
14 Oct 2005 |
|
Affy Transcription Phase 2 |
14 Oct 2005 |
|
Exon Walk |
14 Oct 2005 |
|
Exoniphy |
14 Oct 2005 |
|
AffyHuEx1.0 (Probe Set locations for Affymetrix Human Exon Genechip) |
14 Oct 2005 |
|
NHGRI DNaseI-HS |
14 Oct 2005 |
|
ENCODE GIS STAT1 +/- gIF HeLa |
14 Oct 2005 |
|
N-SCAN Gene Predictions |
04 Oct 2005 |
|
ENCODE UVa DNA Rep Seg, UVa DNA Rep Ori (DNA replication timing segmentation and origins) |
04 Oct 2005 |
|
EvoFold (removed non-syntenic predictions and predictions with only 4 pairing bases)
|
03 Oct 2005 |
|
targetScanS miRNA |
30 Sep 2005 |
|
ENCODE YALE MAS TAR (additional data) |
27 Sep 2005 |
|
ENCODE YALE MAS RNA (additional data from June freeze) |
27 Sep 2005 |
|
Tajima's D, Tajima's D SNPs |
23 Sep 2005 |
|
5x Reg Potential |
22 Sep 2005 |
|
ENCODE BU Orchid |
21 Sep 2005 |
|
ENCODE NHGRI DIPs: Whole Genome Shotgun insertion/deletion polymorphisms from Jim Mullikin/SSAHA |
21 Sep 2005 |
|
ENCODE: LI Ng gIF ChIP (HeLa) |
20 Sep 2005 |
|
ENCODE: LI Ng Validation (Pol2, Taf1, H3K4me, H3ac) |
20 Sep 2005 |
|
ENCODE Sanger ChIP-chip |
20 Sep 2005 |
|
ENCODE: Ludwig Institute/UCSD ChIP-chip - Pol II, TAF1, AcH3, H3K4me, SUZ12, and H3K27me antibodies - repackage three existing tracks into one |
20 Sep 2005 |
|
ENCODE: Yale ChIP-chip (STAT1 ab, Hela cells, P-Values) |
20 Sep 2005 |
|
ENCODE: LI gIF ChIP (HeLa)
|
19 Sep 2005 |
|
ENCODE HapMap Allele Frequencies |
19 Sep 2005 |
|
ENCODE: GIS P53 5FU HCT116 |
19 Sep 2005 |
|
ENENCODE: Affy Transfrags, Affy pVal {0,2,8,32}h, Affy Sites {0,2,8,32}h |
16 Sep 2005 |
|
ENCODE: Affy RNA Signal |
16 Sep 2005 |
|
ENCODE: Yale MAS array, RNA Transcript Map, Placenta, Nimblegen Protocol |
16 Sep 2005 |
|
ENCODE: Yale MAS array, RNA Transcriptionally Active Regions, Placenta, Nimblegen Protocol |
16 Sep 2005 |
|
ENCODE: Yale ChIP-chip (STAT1 ab, Hela cells, Signal) |
16 Sep 2005 |
|
ENCODE: Yale ChIP-chip (STAT1 ab, Hela cells, Binding Sites) |
16 Sep 2005 |
|
ENCODE: Yale TAR |
16 Sep 2005 |
|
HapMap Coverage: Depth of resequencing for 10 encode regions (work done by Broad and Baylor for the HapMap project) |
16 Sep 2005 |
|
ENCODE: Stanford Endogenous Transcript Levels in HCT116 Cells;
Stanford ChIP-chip (HCT116, Jurkat, K562 cells; Sp1, Sp3 ChIP);
Stanford ChIP-chip Smoothed Score;
Stanford Methylation Digest: Be2C, CRL1690, HCT116, HT1080, HepG2, JEG3, Snu182, U87;
Stanford Methylation Digest Smoothed Score |
16 Sep 2005 |
|
ENCODE: Stanf Promoter |
15 Sep 2005 |
|
ENCODE: BU First Exon |
15 Sep 2005 |
|
ENCODE: Yale RNA |
15 Sep 2005 |
|
ENCODE: Sanger Assoc |
15 Sep 2005 |
|
ENCODE: UC Davis ChIP-chip Nimblegen - E2F1 ab, HeLa Cells |
15 Sep 2005 |
|
ENCODE: GIS RNA PET |
15 Sep 2005 |
|
ENCODE: TBA23 EvoFold (Predictions of RNA Secondary Structure Using TBA23, ENCODE Regions only) |
15 Sep 2005 |
|
ENCODE: Known+Pred RNA (Known and Predicted RNA Transcription) |
15 Sep 2005 |
|
ENCODE: UW/Regulome DNase I Hypersensitivity Probability |
14 Sep 2005 |
|
ENCODE: Regulome DNase I Hypersensitivity |
14 Sep 2005 |
|
UW/Regulome Plate Quality |
14 Sep 2005 |
|
Regulome DNAse I Hypersensitivity Amplicons |
14 Sep 2005 |
|
ENCODE: NHGRI DNaseI-HS |
14 Sep 2005 |
|
ENCODE: Riken CAGE - predicted gene start sites |
13 Sep 2005 |
|
Updated AceView (acembly) track from NCBI. |
12 Sep 2005 |
|
ENCODE Gene Prediction Workshop (EGASP) Updates |
12 Sep 2005 |
|
EGASP Partial |
31 Aug 2005 |
|
Sangamo/EIO CD34 DNase Hypersensitivity |
30 Aug 2005 |
|
EGASP Full |
29 Aug 2005 |
|
Gencode Introns |
29 Aug 2005 |
|
Gencode Genes |
29 Aug 2005 |
|
Aternative Splicing |
29 Aug 2005 |
|
sno/miRNA (data update) |
26 Aug 2005 |
|
Gene Sorter (updated to pick up Pfam Domains for splice variants in new Known Genes) |
12 Aug 2005 |
|
Reloaded table for new known genes |
03 Aug 2005 |
|
Gene Sorter: RankProp Score (table reloaded for new Known Genes) |
01 Aug 2005 |
|
Gene Sorter support |
29 Jul 2005 |
|
Old Known Genes (Table Browser only) |
28 Jul 2005 |
|
Rhesus macaque (rheMac1) Chain and Net |
25 Jul 2005 |
|
bosTau1ToHg17 and hg17ToBosTau1 liftOver (Downloads, Batch Coordinate Conversion utility) |
22 Jul 2005 |
|
rheMac1ToHg17 and hg17ToRheMac1 liftOver (Downloads, Batch Coordinate Conversion utility) |
22 Jul 2005 |
|
EvoFold (Predictions of RNA Secondary Structure) |
15 Jul 2005 |
|
sno/miRNA (data update) |
13 Jul 2005 |
|
augustus gene predictions |
07 Jul 2005 |
|
hg17ToXenTro1, hg17ToGalGal2, hg17ToMonDom1, hg17ToTetNig1, hg17ToDanRer2 liftOver (Downloads, Batch Coordinate Conversion utility) |
06 Jul 2005 |
|
hg17ToCanFam1 and canFam1ToHg17 liftOver (Downloads, Batch Coordinate Conversion utility) |
05 Jul 2005 |
|
Known Genes, Gene Sorter, Proteome Browser (data update, new filtering process) |
15 Jun 2005 |
|
Gene Sorter (humanNormal microarray data) |
02 Jun 2005 |
|
hg17ToMm6 liftOver (Downloads and browser Batch Coordinate Conversion utility) |
01 Jun 2005 |
|
hg17ToRn3 liftOver (Downloads and browser Batch Coordinate Conversion utility) |
01 Jun 2005 |
|
Restriction Enzyme mapping (REbase release 505). |
24 May 2005 |
|
vega and vegaPseudogene |
10 May 2005 |
|
chain/net tracks to mm6 |
05 May 2005 |
|
wgRna (data update) |
26 Apr 2005 |
|
Retroposed Genes |
21 Apr 2005 |
|
add table ccdsKgMap to link ccdsGene to knownGenes |
20 Apr 2005 |
|
Cow BAC Ends |
31 Mar 2005 |
|
Consensus CDS (X/Y PAR region corrected) |
22 Mar 2005 |
|
SNPs (data update: Affy genotyping SNPs) |
11 Mar 2005 |
|
CCDS genes (enabled robust details page) |
04 Mar 2005 |
|
Non-Human RefSeqs |
04 Mar 2005 |
|
STS Markers (updated mapping) |
28 Feb 2005 |
|
Yale Pseudo (Processed Pseudogenes from yale) |
25 Feb 2005 |
|
Cow Chain/Net |
18 Feb 2005 |
|
Tetraodon Ecores |
15 Feb 2005 |
|
RGD QTL (data update) |
14 Feb 2005 |
|
Gene Bounds
(Gene Boundaries as Defined by RNA and Spliced EST Clusters) |
10 Feb 2005 |
|
Acembly (AceView Gene Models) |
07 Feb 2005 |
|
TFBS Conserved (transcr. factor binding sites) |
04 Feb 2005 |
|
SNPs (dbSNP build 124) |
01 Feb 2005 |
|
SNP track enhancement to support exceptions from dbSnp. (dbSnp build 123) |
20 Jan 2005 |
|
TIGR Gene Index |
10 Jan 2005 |
|
sno/miRNA - C/D and H/ACA Box snoRNAs, scaRNAs, and microRNAs from Weber and Griffiths-Jones (replaces the miRNA track) |
07 Jan 2005 |
|
Zebrafish (danRer2) Chain and Net |
06 Jan 2005 |
|
Gene Sorter extension (rankProp, psi-blast) |
23 Dec 2004 |
|
Superfamily |
21 Dec 2004 |
|
Proteome Browser (data update) |
18 Dec 2004 |
|
Known Genes (data update) |
18 Dec 2004 |
|
Gene Sorter (data update) |
18 Dec 2004 |
|
miRNA data correction for hsa-mir-30a |
15 Dec 2004 |
|
SNPs (track based on 'snp' table, not 'snpMap' table) |
05 Dec 2004 |
|
Ensembl Genes |
24 Nov 2004 |
|
X. tropicalis Net |
22 Nov 2004 |
|
X. tropicalis Chain |
22 Nov 2004 |
|
ECgene new track, EST clustering gene prediction |
22 Nov 2004 |
|
WSSD Duplication (from Xinwei She and Evan Eichler) |
29 Oct 2004 |
|
Segmental Dups (from Xinwei She and Evan Eichler) |
29 Oct 2004 |
|
UniGene version 171 added to Human browser |
20 Oct 2004 |
|
Affy U133Plus2 |
13 Oct 2004 |
|
RDG QTL |
13 Oct 2004 |
|
Known Genes (add 3', 5' UTR mRNA secondary structure predictions) |
11 Oct 2004 |
|
Known Genes (add BioCyc pathways links) |
11 Oct 2004 |
|
SGP Genes |
01 Oct 2004 |
|
Conservation (data update), Most Conserved added |
21 Sep 2004 |
|
Self Chain |
21 Sep 2004 |
|
Gene Sorter Expression Distance (expanded data set) |
16 Sep 2004 |
|
ENCODE Regions |
15 Sep 2004 |
|
Tetraodon Chain, Net |
13 Sep 2004 |
|
MicroRNAs from the miRNA Registry |
09 Sep 2004 |
|
Twinscan gene predictions |
08 Sep 2004 |
|
Retroposed Genes |
01 Sep 2004 |
|
fishClones |
13 Aug 2004 |
|
H-Inv (Human gene database, with full-length cDNA clones) |
13 Aug 2004 |
|
Gene Sorter Expression Distance |
11 Aug 2004 |
|
Gene Sorter Gene Maps |
11 Aug 2004 |
|
Gene Sorter Fundamentals |
11 Aug 2004 |
|
Geneid |
10 Aug 2004 |
|
Initial hg17 release (using NCBI Build 35): Chromosome Band, STS Markers, FISH Clones, Recomb Rate, Map Contigs, Assembly, Gap, Coverage, BAC End Pairs, Fosmid End Pairs, GC Percent, Known Genes, Proteome Browser, RefSeq Genes, MGC Genes, Genscan Genes, Human mRNAs, Spliced ESTs, Human ESTs, NonHuman mRNAs, NonHuman ESTs, CpG Islands, Fugu Blat,
Conservation, Fugu Chain, Fugu Net, Zebrafish Chain, Zebrafish Net, Chicken Chain, Chicken Net, Rat Chain, Rat Net, Mouse Chain, Mouse Net, Dog Chain, Dog Net, Chimp Chain, Chimp Net, RepeatMasker, Simple Repeats.
Downloads: bigZips, chromosomes, database |
23 Jul 2004 |
| |
|
|
|
Human July 2003 (hg16, NCBI Build 34) |
|
|---|
| |
| Track/Table Name |
Release Date
|
|
Added NCBI Clone Validation information to details of MGC genes |
12 Jan 2007 |
|
Add Conrad, McCarroll and Hinds deletions. |
30 Jun 2006 |
|
EvoFold (changed documentation on description page) |
29 Jun 2006 |
|
HapMap LD (Phase II; October 2005 data) |
08 Feb 2006 |
|
Improved searching capability for Known Genes |
03 Feb 2006 |
|
ENCODE EGASP Full (Correction) |
12 Jan 2006 |
|
Recomb Hotspots: ENCODE recombination hotspots and rates |
06 Jan 2006 |
|
LiftOvers: hg16 -> galgal2, mm4, mm5, mm6, panTro1, pt0, rn3 |
04 Jan 2006 |
|
Recomb Rates and Hotspots: from HapMap and Perlegen data |
04 Jan 2006 |
|
ENCODE GIS PET RNA (update) |
07 Nov 2005 |
|
Oxford Recombination Hotspots (from HapMap phase I, release 16a) |
25 Oct 2005 |
|
Oxford Recombination Rates (from HapMap phase I, release 16a) |
25 Oct 2005 |
|
AffyHuEx1.0 (Probe Set locations for Affymetrix Human Exon Genechip) |
14 Oct 2005 |
|
NHGRI DNaseI-HS |
14 Oct 2005 |
|
EvoFold (removed non-syntenic predictions and predictions with only 4 pairing bases)
|
03 Oct 2005 |
|
ENCODE YALE MAS TAR (additional data) |
27 Sep 2005 |
|
ENCODE YALE MAS RNA (additional data from June freeze) |
27 Sep 2005 |
|
Tajima's D, Tajima's D SNPs |
23 Sep 2005 |
|
Gencode Unannotated Region Classification |
30 Aug 2005 |
|
ENCODE Consensus Unannotated Transfrags |
30 Aug 2005 |
|
Yale and Affymetrix Unannotated TransFrags |
30 Aug 2005 |
|
EGASP Full |
26 Aug 2005 |
|
Affymetrix 25 bp Probe Locations |
18 Aug 2005 |
|
Yale RNA reloaded to fix off-by-one coordinates |
08 Aug 2005 |
|
Yale RNA reloaded to fix off-by-one coordinates |
08 Aug 2005 |
|
Yale TAR reloaded to fix off-by-one coordinates |
08 Aug 2005 |
|
Affy RNA Signal reloaded to fix off-by-one coordinates |
08 Aug 2005 |
|
Affy pVal reloaded to fix off-by-one coordinates |
08 Aug 2005 |
|
CNPs; Copy Number Polymorphisms |
29 Jul 2005 |
|
Mlagan Alignment (data update) |
26 Jul 2005 |
|
ENCODE All Introns Proximal |
17 Jul 2005 |
|
ENCODE All Introns Distal |
17 Jul 2005 |
|
ENCODE All Intergenic Proximal |
17 Jul 2005 |
|
ENCODE All Intergenic Distal |
17 Jul 2005 |
|
ENCODE Introns Proximal |
17 Jul 2005 |
|
ENCODE Introns Distal |
17 Jul 2005 |
|
ENCODE Intergenic Proximal |
17 Jul 2005 |
|
ENCODE Intergenic Distal |
17 Jul 2005 |
|
TBA23 EvoFold (Predictions of RNA Secondary Structure Using TBA23, ENCODE Regions only) |
15 Jul 2005 |
|
EvoFold (Predictions of RNA Secondary Structure) |
15 Jul 2005 |
|
HapMap Coverage: Depth of resequencing for 10 encode regions (work done by Broad and Baylor for the HapMap project) |
14 Jul 2005 |
|
Regulome DNAse I Hypersensitivity Amplicons |
14 Jul 2005 |
|
UW/Regulome Plate Quality |
14 Jul 2005 |
|
UW/Regulome DNase I Hypersensitivity Probability |
14 Jul 2005 |
|
Regulome DNase I Hypersensitivity |
14 Jul 2005 |
|
Consensus Elements: TBA and MLAGAN Union/Intersection |
14 Jul 2005 |
|
ENCODE Stanford LAGAN Alignments |
14 Jul 2005 |
|
ENCODE: NHGRI/PSU TBA Alignments |
14 Jul 2005 |
|
Recombination in 10 ENCODE regions (cM/Mb) |
13 Jul 2005 |
|
ENCODE Stanford LAGAN Conserved Elements |
11 Jul 2005 |
|
ENCODE Stanford LAGAN Conservation |
11 Jul 2005 |
|
Primate Alleles |
08 Jul 2005 |
|
Gene Prediction Workshop (EGASP) for Partial ENCODE Regions |
06 Jul 2005 |
|
Gene Prediction Workshop (EGASP) All ENCODE Regions |
06 Jul 2005 |
|
Stanford Endogenous Transcript Levels in HCT116 Cells;
Stanford ChIP-chip (HCT116, Jurkat, K562 cells; Sp1, Sp3 ChIP);
Stanford ChIP-chip Smoothed Score;
Stanford Methylation Digest: Be2C, CRL1690, HCT116, HT1080, HepG2, JEG3, Snu182, U87;
Stanford Methylation Digest Smoothed Score |
06 Jul 2005 |
|
ENCODE: Riken CAGE - predicted gene start sites |
06 Jul 2005 |
|
ENCODE Gene Prediction Workshop (EGASP) Updates |
05 Jul 2005 |
|
ENCODE HapMap Allele Frequencies |
05 Jul 2005 |
|
H3K4me3/K562 new subtrack added to Sanger ChIP |
01 Jul 2005 |
|
ENCODE: Sanger Assoc |
01 Jul 2005 |
|
Whole Genome Shotgun insertion/deletion polymorphisms from Jim Mullikin/SSAHA |
01 Jul 2005 |
|
ENCODE: Yale MAS array, RNA Transcriptionally Active Regions, Placenta, Nimblegen Protocol |
27 Jun 2005 |
|
ENCODE: Yale MAS array, RNA Transcript Map, Placenta, Nimblegen Protocol |
27 Jun 2005 |
|
ENCODE: Affy RNA Signal, Affy Transfrags, Affy pVal {0,2,8,32}h, Affy Sites {0,2,8,32}h |
17 Jun 2005 |
|
ENCODE: Yale RNA Transcriptionally Active Regions (TARs) |
17 Jun 2005 |
|
ENCODE: Yale RNA Transcript Map (Neutrophil, Placenta and NB4 cells) |
17 Jun 2005 |
|
ENCODE: Yale ChIP-chip (STAT1 ab, Hela cells, P-Values) |
15 Jun 2005 |
|
ENCODE: Yale ChIP-chip (STAT1 ab, Hela cells, Binding Sites) |
15 Jun 2005 |
|
ENCODE: Boston University ORChID |
14 Jun 2005 |
|
ENCODE: UC Davis ChIP-chip Nimblegen - E2F1 ab, HeLa Cells |
14 Jun 2005 |
|
ENCODE: Yale ChIP-chip (STAT1 ab, Hela cells, Signal) |
14 Jun 2005 |
|
ENCODE: Gencode Introns (Intron validation for selected Gencode Genes) |
14 Jun 2005 |
|
Gencode Genes (Manual annotations in the ENCODE regions from the Gencode project) |
14 Jun 2005 |
|
Retroposed Genes (data update) |
14 Jun 2005 |
|
ENCODE: ChIP-PET/GIS (data update, has cluster counts) |
14 Jun 2005 |
|
ENCODE: Ludwig Institute/UCSD ChIP-chip - Pol II, TAF1, AcH3, H3K4me, SUZ12, and H3K27me antibodies - repackage three existing tracks into one |
13 Jun 2005 |
|
ENCODE: Ludwig Institute/UCSD ChIP-chip - gamma interferon experiments |
13 Jun 2005 |
|
ENCODE: GIS RNA PET |
10 Jun 2005 |
|
ENCODE: NHGRI DNaseI-HS (data update; now includes sites from activated as well as unactivated cells) |
10 Jun 2005 |
|
ENCODE: Sanger ChIP-chip (histones H3,H4 GM06990) |
10 Jun 2005 |
|
Affymetrix ChIP-chip (Pol2 RA-stim HL60) Signal in ENCODE Regions (changed from wig to bedGraph) |
08 Jun 2005 |
|
Affymetrix ChIP-chip (Pol2 RA-stim HL60) PValue in ENCODE Regions (changed from wig to bedGraph) |
08 Jun 2005 |
|
Stanf. Promoter in ENCODE regions (data update; changed to composite track - old name: Promoter/Stanford) |
06 Jun 2005 |
|
DNA Rep/UVA in ENCODE regions (reloaded with new data) |
03 Jun 2005 |
|
ChIP-PET/GIS (P53 TFBS in ENCODE regions) |
24 May 2005 |
|
vega and vegaPseudogene |
10 May 2005 |
|
Promoters/BU (Boston Univ. Promoters in ENCODE regions) |
07 May 2005 |
|
ENCODE UCSD/Ludwig Chip (acetylated and methylated histone binding) |
06 May 2005 |
|
Mouse (March 2005/mm6) Alignment Net |
04 May 2005 |
|
Mouse (March 2005/mm6) Chained Alignments |
04 May 2005 |
|
ENCODE UCSD Ludwig RNAP, ENCODE UCSD Ludwig TAF1 (tracks combined into composite format) |
29 Apr 2005 |
|
ChIp/Sanger (Lysine 4 methylation of histone in ENCODE regions) |
07 Apr 2005 |
|
Updates hg16 SNPs to dbSnp build 122, including Affy genotyping SNPs. |
14 Mar 2005 |
|
Yale Pseudo (Processed Pseudogenes from yale) |
25 Feb 2005 |
|
RNA/Affy Sites (Affymetrix PolyA+ RNA from retinoic acid-stimulated HL60 cells at 4 timepoints, in ENCODE regions)
|
31 Jan 2005 |
|
RNA/Affy Signal (Affymetrix PolyA+ RNA abundance from retinoic acid-stimulated HL60 cells at 4 timepoints, in ENCODE regions)
|
31 Jan 2005 |
|
ChIP Affy Pol2 Sites (Affymetrix ChIP-chip of Pol2 from retinoic acid-stimulated HL60 cells at 4 timepoints, in ENCODE regions)
|
31 Jan 2005 |
|
ChIP Affy Pol2 Pval (Affymetrix ChIP-chip enrichment of Pol2 from retinoic acid-stimulated HL60 cells at 4 timepoints, in ENCODE regions)
|
31 Jan 2005 |
|
ChIP-chip data in ENCODE regions |
05 Nov 2004 |
|
DNA Rep/UVA (ENCODE DNA Replication data from Dutta Lab, University of VIrginia) |
03 Nov 2004 |
|
Promoter/Stanford (Promoters in ENCODE regions, from Myers lab at Stanford) |
02 Nov 2004 |
|
DNaseI-HS/NHGRI (ENCODE DNaseI Hypersensitive sites, from Collins lab, NHGRI) |
01 Nov 2004 |
|
WSSD Overlay (from Xinwei She and Evan Eichler) |
29 Oct 2004 |
|
WSSD Coverage (from Xinwei She and Evan Eichler) |
29 Oct 2004 |
|
WSSD Duplication (from Xinwei She and Evan Eichler) |
29 Oct 2004 |
|
Segmental Dups (from Xinwei She and Evan Eichler) |
29 Oct 2004 |
|
Perlegen Haplotypes (8 records changed to correct block ordering) |
11 Oct 2004 |
|
Ensembl EST Genes |
10 Sep 2004 |
|
Vega Gene: data update (extending 3' UTR for 398 annotations). |
23 Aug 2004 |
|
Twinscan: data update (additional exons added for 27 annotations). |
20 Jul 2004 |
|
Ensembl Genes: data update (64 annotations changed by 1 or 2 bases). |
20 Jul 2004 |
|
Exoniphy: Conserved Exon Predictions |
14 Jul 2004 |
|
Retroposed Genes |
19 Jun 2004 |
|
H-Inv (Full-length cDNA from the H-Invitational Human Gene Annotation Database) |
08 Jun 2004 |
|
ensTranscript and ensGeneXref tables dropped (replaced by
ensemblXref3) |
03 Jun 2004 |
|
Ensembl Gene (updated to 34d), Superfamily (updated) |
03 Jun 2004 |
|
GC% Win20K (dropped - replaced by 5-base window GC Percent track) |
01 Jun 2004 |
|
Alt-Splicing (data update) |
27 May 2004 |
|
Fugu Chain, Fugu Net (using fr1) |
24 May 2004 |
|
STS Markers (updated) |
24 May 2004 |
|
TIGR Gene Index |
21 May 2004 |
|
Chimp Recip Chain, Chimp Recip Net (updated to panTro1 assembly)
|
21 May 2004 |
|
Chimp Chain (updated to panTro1 assembly) |
21 May 2004 |
|
RNA Genes |
19 May 2004 |
|
GC Percent (updated to 5-base window track) |
19 May 2004 |
|
TFBS Conserved |
05 May 2004 |
|
miRNA (updated) |
05 May 2004 |
|
Tetraodon Ecores |
03 May 2004 |
|
Microsatellites |
03 May 2004 |
|
jaxOrtholog table |
30 Apr 2004 |
|
Chicken Chain, Chicken Net (using galGal2) |
29 Apr 2004 |
|
Fugu Ecores |
29 Apr 2004 |
|
Acembly |
20 Apr 2004 |
|
SNPs (updated to dbSNP Build 120) |
20 Apr 2004 |
|
RNA Genes |
13 Apr 2004 |
|
Hu/Mouse/Rat/Chick removed (replaced by Hu/Chp/Mo/Ra/Chk) |
12 Apr 2004 |
|
Hu/Chp/Mo/Ra/Chk |
12 Apr 2004 |
|
Known Genes (updated to use proteins040315) |
09 Apr 2004 |
|
Affymetrix U133 (updated) |
09 Apr 2004 |
|
GNF Atlas 2 |
09 Apr 2004 |
|
Affymetrix GNF1H |
09 Apr 2004 |
|
ECgene Genes (updated to include new peptide table) |
05 Apr 2004 |
|
Human/Mouse/Rat removed (replaced by Hu/Mouse/Rat/Chick) |
29 Mar 2004 |
|
Hu/Mouse/Rat/Chick (using mm3, rn3, galGal2) - replaces Human/Mouse/Rat track |
19 Mar 2004 |
|
ECgene Genes (updated) |
19 Mar 2004 |
|
miRNA |
19 Mar 2004 |
|
SGP (updated to use mm4) |
05 Mar 2004 |
|
Map Contigs (updated) |
02 Mar 2004 |
|
Perlegen (updated) |
02 Mar 2004 |
|
Fgenesh++ Genes |
13 Feb 2004 |
|
affyU133, affyU95 tables |
10 Feb 2004 |
|
Known Genes (updated) |
06 Feb 2004 |
|
2X Reg Potential, 3X Reg Potential |
05 Feb 2004 |
|
Ensembl Genes (update) |
04 Feb 2004 |
|
Mm3 Chain, Mm3 Net removed (replaced by mm4 versions) |
20 Jan 2004 |
|
chr{4,8,X,Un}_random_gap, chr{4,8,X,Un}_random_gold tables (updated) |
16 Jan 2004 |
|
Chimp Diff |
16 Jan 2004 |
|
Affy10K |
14 Jan 2004 |
|
Mm4 Net (updates Mouse Net using mm4) |
12 Jan 2004 |
|
Mm4 Chain (updates Mouse Chain using mm4) |
09 Jan 2004 |
|
Mm4 Tight (updates Mouse Tight using mm4) |
08 Jan 2004 |
|
ECgene Genes |
22 Dec 2003 |
|
vsPt0/axtBest downloads (chimp reciprocal best) |
22 Dec 2003 |
|
Alt-Splicing |
18 Dec 2003 |
|
Twinscan Genes |
18 Dec 2003 |
|
Chimp All Chains, Chimp Net, Chimp sequence and chain downloads |
10 Dec 2003 |
|
BAC End Pairs (updated) |
19 Nov 2003 |
|
TIGR Gene Index |
18 Nov 2003 |
|
Ensembl Genes |
18 Nov 2003 |
|
Chain Self |
15 Nov 2003 |
|
UniGene_2, sage |
12 Nov 2003 |
|
Gene Bounds |
12 Nov 2003 |
|
Chain Self |
11 Nov 2003 |
|
Vega Genes, Vega Pseudogenes |
07 Nov 2003 |
|
NCI60 |
24 Oct 2003 |
|
Known Genes (add UTR 3' and 5' folding data) |
24 Oct 2003 |
|
Haplotype Blocks, Perlegen (chr 21 and 22 only) |
24 Oct 2003 |
|
Human/Mouse/Rat downloads |
24 Oct 2003 |
|
Mouse Synteny |
21 Oct 2003 |
|
Genbank daily updates enabled |
14 Oct 2003 |
|
Affy 120K SNPs |
13 Oct 2003 |
|
Random SNPs, Overlap SNPs (dbSnp 117) |
10 Oct 2003 |
|
Human/Mouse/Rat (using mm3 and rn3) |
09 Oct 2003 |
|
Known Genes (update) |
08 Oct 2003 |
|
Fugu Blat (v. 3.0) |
02 Oct 2003 |
|
affyRatio table |
29 Sep 2003 |
|
SGP Genes |
29 Sep 2003 |
|
Gene Sorter |
29 Sep 2003 |
|
vsMm3, vsRn3 data downloads |
29 Sep 2003 |
|
Twinscan |
18 Sep 2003 |
|
Geneid |
18 Sep 2003 |
|
Mouse Chain (using mm3) |
10 Sep 2003 |
|
Mouse Net (using mm3) (contains fixes to chr1 data) |
10 Sep 2003 |
|
Mouse Tight (using mm3) (contains fixes to chr1 data) |
10 Sep 2003 |
|
First EF (contains fixes to chrX and chrY) |
09 Sep 2003 |
|
Mouse Net (using mm3) |
02 Sep 2003 |
|
Rat Net (using rn3) |
02 Sep 2003 |
|
Rat Chain |
29 Aug 2003 |
|
Mouse Chain |
29 Aug 2003 |
|
Tight Mouse |
29 Aug 2003 |
|
Self Chain |
29 Aug 2003 |
|
Known Genes |
26 Aug 2003 |
|
STS Markers (updated) |
11 Aug 2003 |
|
Initial hg16 release (using NCBI Build 34): Chromosome Band, FISH Clones, Assembly, Gap, STS Markers, Map Contigs, Recomb Rate, GC Percent, Coverage, BAC End Pairs, Fosmid End Pairs, RefSeq Genes, MGC Genes, Genscan Genes, Human mRNAs, Spliced ESTs, Human ESTs, NonHuman mRNAs, NonHuman ESTs, CpG Islands, RepeatMasker, Simple Repeats. Downloads: bigZips, chromosomes, database |
08 Aug 2003 |
| |
|
|
|
Human Apr. 2003 (hg15, NCBI Build 33) |
|
|---|
| |
| Track/Table Name |
Release Date
|
|
Improved searching capability for Known Genes |
03 Feb 2006 |
|
Cow Synteny |
20 Dec 2005 |
|
Affy Txn Phase2 |
03 Jun 2005 |
|
Cow Synteny |
31 Mar 2005 |
|
Cow BAC Ends |
31 Mar 2005 |
|
Transcription and Transfrags |
13 Aug 2004 |
|
Retroposed Genes |
22 Jun 2004 |
|
RNA Genes |
19 May 2004 |
|
TFBS Conserved |
05 May 2004 |
|
GNF Ratio (updated) |
14 Apr 2004 |
|
GNF Ratio (updated) |
05 Mar 2004 |
|
SGP Genes (updated) |
05 Mar 2004 |
|
Known Genes (updated to use proteins040315) |
05 Mar 2004 |
|
Ensembl Genes (update) |
30 Jan 2004 |
|
Affy10K |
14 Jan 2004 |
|
Random SNPs, Overlap SNPs (dbSnp 112) |
31 Oct 2003 |
|
Affy 120K SNPs |
13 Oct 2003 |
|
KnownGenes (extended) |
08 Oct 2003 |
|
affyRatio table |
29 Sep 2003 |
|
ensPep table |
29 Sep 2003 |
|
Segmental Dups |
18 Sep 2003 |
|
First EF (contains fixes to chrX and chrY) |
09 Sep 2003 |
|
First EF |
27 Aug 2003 |
|
Downloads: Mouse (mm3)/Rat (rn2)/Human multiple alignments |
22 Aug 2003 |
|
NonHuman ESTs |
25 Jul 2003 |
|
Ensembl Genes |
15 Jul 2003 |
|
Mouse Cons (using mm3) |
09 Jul 2003 |
|
Best Mouse (using mm3) |
09 Jul 2003 |
|
bigZips (upstream files updated) |
09 Jul 2003 |
|
Blastz axtTight mouse alignments (using mm3) |
25 Jun 2003 |
|
Acembly |
05 Jun 2003 |
|
AxtInfo (updated to use axtNetMm3) |
30 May 2003 |
|
UniGene (v. Hs 160) |
27 May 2003 |
|
Tight Rat (using rn2) |
27 May 2003 |
|
Gene Bounds |
27 May 2003 |
|
Rat Synteny (using rn2) |
27 May 2003 |
|
Human/Mouse/Rat (using mm3, rn2) |
27 May 2003 |
|
MGC Genes |
27 May 2003 |
|
Fosmid End Pairs |
20 May 2003 |
|
SGP Genes (using mm3) |
20 May 2003 |
|
Haplotype Blocks (chr 21 and 22 only) |
20 May 2003 |
|
Overlap and Random SNPs (dbSnp 114) |
15 May 2003 |
|
Blastz axtBest mouse alignments (using mm3) |
13 May 2003 |
|
Human/Mouse Chain and Net (using mm3) |
09 May 2003 |
|
Geneid Genes |
08 May 2003 |
|
Twinscan (using mm2) |
08 May 2003 |
|
Recomb Rate |
01 May 2003 |
|
geneBands (table only) |
30 Apr 2003 |
|
NCI60 |
30 Apr 2003 |
|
GNF Ratio |
30 Apr 2003 |
|
GC Percent (data reloaded) |
29 Apr 2003 |
|
Chromosome Band |
28 Apr 2003 |
|
Fgenesh++ Genes |
28 Apr 2003 |
|
FISH Clones |
28 Apr 2003 |
|
BAC End Pairs |
25 Apr 2003 |
|
Coverage |
25 Apr 2003 |
|
liftAll.zip (correction for NT_008183 - table only) |
16 Apr 2003 |
|
Initial hg15 release (using NCBI Build 33): Assembly, Gap, STS Markers, Map Contigs, GC Percent, Known Genes, RefSeq Genes, Genscan Genes, Human mRNAs, Spliced ESTs, Human ESTs, NonHuman mRNAs, CpG Islands, Fugu Blat (v 3.0), Tight Mouse (mm3), RepeatMasker, Simple Repeats, Mouse Synteny (mm3) |
14 Apr 2003 |
| |
|
|
|
Chimp Mar. 2006 (panTro2, Washington University Build 2 Version 1) |
|
|---|
| |
| Track/Table Name |
Release Date
|
|
Marmoset Chain/Net/LiftOver (calJac1) |
24 Apr 2008 |
|
Ensembl genes, version 49 |
17 Apr 2008 |
|
Mouse (Jul. 2007/mm9) Chained Alignments
Mouse (Jul. 2007/mm9) Alignment Net |
19 Oct 2007 |
|
N-SCAN chimp predictions using mouse (mm8) as the informant |
01 Aug 2006 |
|
Chicken (galGal2) Chains, Net and LiftOvers |
31 Jul 2006 |
|
Zebrafish (danRer4) Chains, Net and LiftOvers |
31 Jul 2006 |
|
Dog (canFam2) Chains, Net and LiftOvers |
26 Jul 2006 |
|
Genscan Genes |
21 Jul 2006 |
|
Initial panTro2 release (Build 2, Version 1, October 2005):
Assembly; Gap; GC Percent; Quality Scores; RefSeq Genes; Non-Chimp/Human RefSeq Genes; Chimp/Human ESTs; Spliced ESTs; Chimp/Human mRNAs; Non-Chimp/Human mRNAs; CpG Islands; Chains & Nets: Rat, Mouse, Rhesus, Human; RepeatMasker; Simple Repeats.
Downloads: bigZips, chromosomes, database, lift over files. |
20 Jul 2006 |
| |
|
|
|
Chimp Nov. 2003 (panTro1, CGSC Build 1 Version 1 Arachne assembly) |
|
|---|
| |
| Track/Table Name |
Release Date
|
|
SNP Alignment Display |
01 Dec 2006 |
|
SNP build 125 |
29 Aug 2006 |
|
LiftOvers: fr1, tetNig1, xenTro1, galGal2, bosTau2, rheMac1, panTro1, hg17, rn3 -> mm7; fr1, tetNig1, xenTro1, galGal2, panTro1 -> mm6; galGal2 -> danRer2, mm5, hg17, monDom1, tetNig1, xenTro1; rheMac1 -> hg17; panTro1 -> hg16, hg17 |
03 Jan 2006 |
|
chain/net tracks to mm6 |
05 May 2005 |
|
Ensembl Genes |
22 Jun 2004 |
|
BAC End Pairs |
28 May 2004 |
|
Fugu Blat |
14 May 2004 |
|
Genscan Genes |
10 May 2004 |
|
Contigs |
28 Apr 2004 |
|
Twinscan |
27 Apr 2004 |
|
Human Deletions (updated) |
14 Apr 2004 |
|
Geneid Genes (chr1 updated) |
07 Apr 2004 |
|
Geneid Genes |
24 Mar 2004 |
|
Human Best, vsHg15 downloads |
02 Mar 2004 |
|
Initial panTro1 Release (using the Build 1 Version 1 Arachne assembly dated 13 Nov. 2003): Scaffolds, Gap, GC Percent, Quality Scores, Human RefSeq, Chimp mRNAs, Spliced ESTs, Chimp ESTs, NonChimp mRNAs, NonChimp ESTs, CpG Islands, Human Chain, Human Net, Human Deletions, RepeatMasker, Simple Repeats. Downloads: bigZips, chromosome, database. |
23 Feb 2004 |
| |
|
|
|
Orangutan July 2007 (ponAbe2, WUSTL 3.0) |
|
|---|
| |
| Track/Table Name |
Release Date
|
|
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 |
| |
|
|
|
Rhesus Jan. 2006 (rheMac2, Venter Inst./Baylor/WashU Merged assembly Jan 2006 v1 edit4) |
|
|---|
| |
| Track/Table Name |
Release Date
|
|
Marmoset Chain/Net/LiftOver (calJac1) |
24 Apr 2008 |
|
Ensembl genes, version 49 |
17 Apr 2008 |
|
SGP and Geneid tracks |
02 Jan 2008 |
|
Mouse (Jul. 2007/mm9) Chained Alignments
Mouse (Jul. 2007/mm9) Alignment Net |
11 Sep 2007 |
|
Native RefSeqs |
13 Jun 2007 |
|
CpG Islands |
12 Sep 2006 |
|
N-SCAN gene prediction for Rhesus rheMac2 from Michael Brent's Computational Genomics Group at Washington University St. Louis
|
11 Aug 2006 |
|
quality scores for rheMac2 |
20 Mar 2006 |
|
Contigs. Table update. Added missing records. |
16 Feb 2006 |
|
Initial rhesus macaque browser release (Macaca mulatta preliminary assembly, Baylor, rheMac2) Assembly, Gap, RepeatMasker, Simple Repeats, Other RefSeq, Other mRNAs, Spliced ESTs, Rhesus mRNAs, Rhesus ESTs |
13 Feb 2006 |
| |
|
|
|
Marmoset June 2007 (calJac1, WUSTL 2.0.2) |
|
|---|
| |
| Track/Table Name |
Release Date
|
|
Initial calJac1 release (using WUSTL 2.0.2): Assembly, Gap, GC Percent, Other RefSeq, N-SCAN, Genscan Genes, Marmoset mRNAs, Spliced ESTs, Marmoset ESTs, Non-marmoset mRNAs, Conservation, Most Conserved, RepeatMasker, Simple Repeats, Net/Chains: Rhesus, Orangutan, Chimp, Human, Mouse, Dog, Opossum, Platypus. Downloads: bigZips, database, liftOvers, comparitaves, multiz, phastCons. |
24 Apr 2008 |
| |
|
|
|
Mouse July 2007 (mm9, NCBI Build 37) |
|
|---|
| |
| Track/Table Name |
Release Date
|
|
Gene Trap (data update 06-01-2008) |
13 Jun 2008 |
|
Guinea Pig Chain and Net |
11 Jun 2008 |
|
Lamprey Chain/Net/LiftOver (petMar1) |
10 Jun 2008 |
|
Lancelet Chain/Net/LiftOver (braFlo1) |
10 Jun 2008 |
|
MicroRNAs from miRBase (track update) |
05 Jun 2008 |
|
Vega Genes - Vega Annotations, Vega Annotated Pseudogenes and Immunoglobulin Segments |
04 Jun 2008 |
|
Update of CCDS annotations |
04 Jun 2008 |
|
TROMER Transcriptome database, SIB Alt-Splicing |
29 May 2008 |
|
Gene Trap (data update 05-01-2008) |
07 May 2008 |
|
Marmoset Chain/Net/LiftOver (calJac1) |
24 Apr 2008 |
|
Ensembl genes, version 49 |
17 Apr 2008 |
|
Gene Trap (data update 04-01-2008) |
10 Apr 2008 |
|
Chain track, Net track, and liftOver file to bosTau4 |
08 Apr 2008 |
|
Gene Trap (data update 03-01-2008) |
06 Mar 2008 |
|
Gene Trap (data update 02-01-2008) |
14 Feb 2008 |
|
Updated with CCDS genes (as of 2008-02-01) |
12 Feb 2008 |
|
Gene Trap (data update 01-01-2008) |
11 Jan 2008 |
|
Adding BAC End: RP23-473N24 |
09 Jan 2008 |
|
CCDS update (as of 2007-12-12) |
14 Dec 2007 |
|
Gene Trap (data update 12-01-2007) |
04 Dec 2007 |
|
Conservation (30 vertebrate alignment) |
30 Nov 2007 |
|
Gene Trap (data update 11-01-2007) |
16 Nov 2007 |
|
X. tropicalis (Aug. 2005/xenTro2) Chained Alignments
X. tropicalis (Aug. 2005/xenTro2) Alignment Net |
05 Nov 2007 |
|
CpG Islands |
25 Oct 2007 |
|
N-SCAN gene predictions from WUStL |
25 Oct 2007 |
|
Micro-RNAs |
19 Oct 2007 |
|
Platypus (Mar. 2007/ornAna1) Chained Alignments
Platypus (Mar. 2007/ornAna1) Alignment Net |
19 Oct 2007 |
|
Chimp (Mar 2006/panTro2) Chained Alignments
Chimp (Mar 2006/panTro2) Alignment Net |
19 Oct 2007 |
|
Chicken (May 2006/galGal3) Chained Alignments
Chicken (May 2006/galGal3) Alignment Net |
19 Oct 2007 |
|
Cow (Aug. 2006/bosTau3) Chained Alignments
Cow (Aug. 2006/bosTau3) Alignment Net |
16 Oct 2007 |
|
Horse (Jan. 2007/equCab1) Chained Alignments
Horse (Jan. 2007/equCab1) Alignment Net |
16 Oct 2007 |
|
Lizard (Feb. 2007/anoCar1) Chained Alignments
Lizard (Feb. 2007/anoCar1) Alignment Net |
16 Oct 2007 |
|
SGP Gene Predictions Using Mouse/Human Homology |
15 Oct 2007 |
|
Geneid Gene Predictions |
12 Oct 2007 |
|
Gene Trap (data update 10-01-2007) |
12 Oct 2007 |
|
UCSC Genes |
12 Oct 2007 |
|
Opossum (Jan 2006/monDom4) Chained Alignments
Opossum (Jan 2006/monDom4) Alignment Net |
04 Oct 2007 |
|
AceView Genes |
19 Sep 2007 |
|
Fugu (Oct. 2004/fr2) Chained Alignments
Fugu (Oct. 2004/fr2) Chained Alignments |
14 Sep 2007 |
|
Stickleback (Feb. 2006/gasAcu1) Chained Alignments
Stickleback (Feb. 2006/gasAcu1) Chained Alignments |
12 Sep 2007 |
|
Rhesus (Jan. 2006/rheMac2) Chained Alignments
Rhesus (Jan. 2006/rheMac2) Alignment Net |
11 Sep 2007 |
|
Tetraodon (Feb. 2004/tetNig1) Alignment Net
Tetraodon (Feb. 2004/tetNig1) Chained Alignments |
10 Sep 2007 |
|
Dog (May 2005/canFam2) Chained Alignments
Dog (May 2005/canFam2) Alignment Net |
07 Sep 2007 |
|
Medaka (Apr. 2006/oryLat1) Chained Alignments
Medaka (Apr. 2006/oryLat1) Alignment Net |
06 Sep 2007 |
|
Rat (rn4) Chain and Net tracks and liftOver file |
28 Aug 2007 |
|
Human (hg18) Chain and Net tracks and liftOver file |
28 Aug 2007 |
|
Initial mm9 release (using NCBI Build 37): Chromosome Band; STS Markers; Map Contigs; Assembly; Gap; BAC End Pairs; GC Percent; RefSeq Genes; Other RefSeq; MGC Genes; Genscan Gene;Mouse mRNAs; Spliced ESTs; Mouse ESTs; Non Mouse mRNAs; RepeatMasker; Simple Repeats; Microsatellite; Downloads: bigZips, chromosomes, database. |
22 Aug 2007 |
| |
|
|
|
Mouse Feb. 2006 (mm8, NCBI Build 36) |
|
|---|
| |
| Track/Table Name |
Release Date
|
|
Gene Trap (data update 06-01-2008) |
13 Jun 2008 |
|
Agilent Catalog Oligonucleotide CGH Microarray probesets |
04 Jun 2008 |
|
Update of CCDS annotations |
04 Jun 2008 |
|
Gene Trap (data update 05-01-2008) |
07 May 2008 |
|
Gene Trap (data update 04-01-2008) |
10 Apr 2008 |
|
Gene Trap (data update 03-01-2008) |
06 Mar 2008 |
|
Gene Trap (data update 02-01-2008) |
14 Feb 2008 |
|
Updated with CCDS genes (as of 2008-02-01) |
12 Feb 2008 |
|
Gene Trap (data update 01-01-2008) |
11 Jan 2008 |
|
CCDS update (as of 2007-12-12) |
14 Dec 2007 |
|
Gene Trap (data update 12-01-2007) |
04 Dec 2007 |
|
Gene Trap (data update 11-01-2007) |
16 Nov 2007 |
|
Affymetrix Mouse Exon array version 1.0 probes and transcripts |
18 Oct 2007 |
|
Added CONTRAST gene predictions |
17 Oct 2007 |
|
Gene Trap (data update 10-01-2007) |
12 Oct 2007 |
|
Swiss Institute of Bioinformatics, SIB Genes initial release |
25 Sep 2007 |
|
Swiss Institute of Bioinformatics Alt-Splicing initial release. |
25 Sep 2007 |
|
WSSD Coverage |
20 Sep 2007 |
|
Gene Trap (data update 09-01-2007) |
12 Sep 2007 |
|
Updated Drosophila column in Gene Sorter from dm2 to dm3 FlyBase genes |
28 Aug 2007 |
|
Gene Trap (data update 08-01-2007) |
03 Aug 2007 |
|
Data update and added phenotype-allele relationships. |
01 Aug 2007 |
|
Jackson Lab/MGI QTL |
01 Aug 2007 |
|
removed "e-rows" from the upstream MAF files |
09 Jul 2007 |
|
Gene Trap (data update 07-01-2007) |
09 Jul 2007 |
|
Gene Trap (data update 06-01-2007) |
15 Jun 2007 |
|
CGAP SAGE |
15 Jun 2007 |
|
miRNA (data update) |
01 Jun 2007 |
|
Gene Trap (data update 05-01-2007) |
07 May 2007 |
|
Update of dmBlastTab tables (to dm2) to coincide with Fly Base v4.3 Genes |
20 Apr 2007 |
|
Gene Trap (data update 04-01-2007) |
19 Apr 2007 |
|
Updated annotated maf's to include gap information from other species |
12 Apr 2007 |
|
Update of hgBlastTab tables (to hg18) to coincide with UCSC Genes |
06 Apr 2007 |
|
Gene Trap (data update 3-1-2007) |
14 Mar 2007 |
|
Allen Brain Atlas Probes |
07 Mar 2007 |
|
synteny-filter update for xxBlastTab for HMR (hg18, hg17, mm8, mm7, rn4) |
27 Feb 2007 |
|
Added NCBI Clone Validation information to details of MGC genes |
12 Jan 2007 |
|
miRNA data update |
12 Dec 2006 |
|
SNP Alignment Display |
01 Dec 2006 |
|
Jackson Lab/MGI Representative Transcript, Phenotype and Allele data |
20 Nov 2006 |
|
Updated STS Markers on Genetic and Radiation Hybrid Maps to correct map distances |
03 Nov 2006 |
|
SGP Gene Predictions |
18 Oct 2006 |
|
Geneid Genes |
17 Oct 2006 |
|
NIA Mouse Gene Index |
15 Oct 2006 |
|
Consensus Coding DNA Sequence (CCDS) |
10 Oct 2006 |
|
Update to UCSC Known Genes color coding scheme |
03 Oct 2006 |
|
MicroRNAs from miRBase |
07 Sep 2006 |
|
N-SCAN gene predictions from WUStL |
31 Aug 2006 |
|
SNP build 126 |
14 Aug 2006 |
|
Microsatellite Track: Di-nucleotide and Tri-nucleotide Repeats |
01 Aug 2006 |
|
gene prediction peptide tables |
24 Jul 2006 |
|
Rat Ortholog column of Gene Sorter and Known Gene details updated to rn4 |
20 Jul 2006 |
|
Ensembl Gene Predictions |
10 Jul 2006 |
|
regPotential7X data download files for hg18, hg17, mm8, mm7 |
26 Jun 2006 |
|
ESPERR Regulatory Potential (7 species) |
22 Jun 2006 |
|
Gene Trap |
19 Jun 2006 |
|
Physical Map Contigs |
16 Jun 2006 |
|
Updated frame annotation for Conservation track to fix error with spliced codons |
15 Jun 2006 |
|
chains and nets to Zebrafish (danRer4) |
31 May 2006 |
|
affy U74 |
22 May 2006 |
|
affy MOE430 |
22 May 2006 |
|
affy GNF1m |
22 May 2006 |
|
Initial mm8 release (using NCBI Build 36): Chromosome Band; STS Markers; Assembly; Gap; BAC End Pairs; GC Percent; Known Genes; Proteome Browser; RefSeq Genes; MGC Genes; Genscan Gene;Mouse mRNAs; Spliced ESTs; Mouse ESTs; NonMouse mRNAs; Allen Brain; Rinn Sex Exp; GNF U74A, GNF U74B, GNF U74C, CpG Islands; Conservation; Most Conserved; Chains & Nets: Fugu, Tetraodon, Zebrafish, X. tropicalis, Chicken, Cow, Dog, Rhesus, Chimp, Human; RepeatMasker; Simple Repeats.
Downloads: bigZips, chromosomes, database, liftOvers, multiz17way, phastCons17Scores |
10 May 2006 |
| |
|
|
|
Mouse Aug. 2005 (mm7, NCBI Build 35) |
|
|---|
| |
| Track/Table Name |
Release Date
|
|
Gene Trap (data update 06-01-2008) |
13 Jun 2008 |
|
Gene Trap (data update 05-01-2008) |
07 May 2008 |
|
Gene Trap (data update 04-01-2008) |
10 Apr 2008 |
|
Gene Trap (data update 03-01-2008) |
06 Mar 2008 |
|
Gene Trap (data update 02-01-2008) |
14 Feb 2008 |
|
Gene Trap (data update 01-01-2008) |
11 Jan 2008 |
|
Gene Trap (data update 12-01-2007) |
04 Dec 2007 |
|
Gene Trap (data update 11-01-2007) |
16 Nov 2007 |
|
Gene Trap (data update 10-01-2007) |
12 Oct 2007 |
|
Gene Trap (data update 09-01-2007) |
12 Sep 2007 |
|
Gene Trap (data update 08-01-2007) |
03 Aug 2007 |
|
Gene Trap (data update 07-01-2007) |
09 Jul 2007 |
|
Gene Trap (data update 06-01-2007) |
15 Jun 2007 |
|
Gene Trap (data update 05-01-2007) |
07 May 2007 |
|
Gene Trap (data update 04-01-2007) |
19 Apr 2007 |
|
Gene Trap (data update 3-1-2007) |
14 Mar 2007 |
|
Allen Brain Atlas Probes |
07 Mar 2007 |
|
synteny-filter update for xxBlastTab for HMR (hg18, hg17, mm8, mm7, rn4) |
27 Feb 2007 |
|
Added NCBI Clone Validation information to details of MGC genes |
12 Jan 2007 |
|
Update to UCSC Known Genes color coding scheme |
03 Oct 2006 |
|
Microsatellite Track: Di-nucleotide and Tri-nucleotide Repeats |
01 Aug 2006 |
|
regPotential7X data download files for hg18, hg17, mm8, mm7 |
26 Jun 2006 |
|
ESPERR Regulatory Potential (7 species) |
22 Jun 2006 |
|
Gene Trap |
19 Jun 2006 |
|
MicroRNA target sites in 3' UTRs as predicted by PicTar |
24 May 2006 |
|
sgpGene |
24 May 2006 |
|
VisiGene (Allen Brain Atlas) |
17 Mar 2006 |
|
Zebrafish Chain/Net/LiftOver (danRer3) |
21 Feb 2006 |
|
Link to Gene Network Id from Known Gene details page |
16 Feb 2006 |
|
Improved searching capability for VisiGene |
16 Feb 2006 |
|
Improved searching capability for Known Genes |
03 Feb 2006 |
|
Geneid gene predictions from IMIM at GRIB |
31 Dec 2005 |
|
Allen Brain Atlas Images |
30 Dec 2005 |
|
LiftOvers: mm7 -> fr1/tetNig1/xenTro1/galGal2/bosTau2/rheMac1/panTro1/hg17/rn3 |
22 Dec 2005 |
|
Dog Chain/Net/LiftOver (canFam2) |
22 Dec 2005 |
|
Mouse liftOvers: mm3, mm4, mm5, mm6 -> mm7; mm5-> galGal2; mm6 -> galGal2, monDom1, xenTro1, canFam2, hg16, panTro1, danRer2, fr1, tetNig1 |
21 Dec 2005 |
|
Initial mm7 Release (using NCBI build 35): Chromosome Band; STS Markers; Map Contigs; Gap; BAC End Pairs; GC Percent; Short Match; Restriction Enzymes; CpG Islands; Known Genes; MGC Genes; RefSeq Genes; Other RefSeq; Genscan Genes; ESTs; miRNAs; mRNAs; Non-Mouse mRNAs; Repeat Masker; Simple Repeats; Riken CAGE; Riken CAGE Tc; Allen Brain Atlas; Rinn Sex Expression; GNF Expression; Conservation; Most Conserved; Chains/Nets: Fugu, Tetraodon, X. tropicalis, Chicken, Cow, Rhesus, Chimp, Human, Rat; Gene Sorter; Proteome Browser. Downloads: bigZips, chromosomes, database, comparatives. |
15 Dec 2005 |
| |
|
|
|
Mouse Mar. 2005 (mm6, NCBI Build 34) |
|
|---|
| |
| Track/Table Name |
Release Date
|
|
Gene Trap (data update 09-01-2007) |
12 Sep 2007 |
|
Gene Trap (data update 08-01-2007) |
03 Aug 2007 |
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Gene Trap (data update 07-01-2007) |
09 Jul 2007 |
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Gene Trap (data update 06-01-2007) |
15 Jun 2007 |
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Gene Trap (data update 05-01-2007) |
07 May 2007 |
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Gene Trap (data update 04-01-2007) |
19 Apr 2007 |
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Gene Trap (data update 3-1-2007) |
14 Mar 2007 |
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Allen Brain Atlas Probes |
07 Mar 2007 |
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Added NCBI Clone Validation information to details of MGC genes |
12 Jan 2007 |
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Update to UCSC Known Genes color coding scheme |
03 Oct 2006 |
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Gene Trap |
19 Jun 2006 |
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VisiGene (Allen Brain Atlas) |
17 Mar 2006 |
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Jackson Lab/MGI Representative Transcript, Phenotype and Allele data |
06 Feb 2006 |
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Improved searching capability for Known Genes |
03 Feb 2006 |
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mouseLandscapeDistance (data update) |
01 Feb 2006 |
|
Update to 10-way Conservation Track and Most Conserved Track |
09 Jan 2006 |
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Updated galGal2 -> mm6 chain and net alignments; Updated galGal2 -> mm6 liftOver file (Downloads, Batch Coordinate Conversion utility)
|
09 Jan 2006 |
|
Updated rn3 -> mm6 chain and net alignments; Updated rn3 -> mm6 liftOver file (Downloads, Batch Coordinate Conversion utility)
|
09 Jan 2006 |
|
Updated hg17 -> mm6 chain and net alignments; Updated hg17 -> mm6 liftOver file (Downloads, Batch Coordinate Conversion utility)
|
09 Jan 2006 |
|
mRNA, RefSeq mRNA, and native ESTs: Realigned and filtered
-- improvements in process. |
27 Dec 2005 |
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Mouse liftOvers: mm3, mm4, mm5, mm6 -> mm7; mm5-> galGal2; mm6 -> galGal2, monDom1, xenTro1, canFam2, hg16, panTro1, danRer2, fr1, tetNig1 |
21 Dec 2005 |
|
VisiGene in-situ image viewer (Known Genes details) |
09 Dec 2005 |
|
Riken CAGE |
06 Dec 2005 |
|
Riken CAGE TC |
06 Dec 2005 |
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Allen Brain Atlas Images |
10 Nov 2005 |
|
STS Markers (filtered) |
02 Nov 2005 |
|
miRNA (data update) |
27 Oct 2005 |
|
NIAGene (update) |
19 Oct 2005 |
|
N-SCAN Gene Predictions |
04 Oct 2005 |
|
link in KG details page to GeneNetwork |
14 Sep 2005 |
|
MicroRNAs from the miRNA Registry |
26 Aug 2005 |
|
Superfamily |
24 Aug 2005 |
|
Ensembl Genes |
24 Aug 2005 |
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Gene Sorter (updated to pick up Pfam Domains for splice variants in new Known Genes) |
12 Aug 2005 |
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SCDb Clones - Princeton Stem Cell Database (Mouse & Human; freeze date 7/15/2005) |
04 Aug 2005 |
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BAC End Pairs |
27 Jul 2005 |
|
NIA (National Institute on Aging) Mouse Gene Index Version 5 |
22 Jul 2005 |
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mm6ToBosTau1 and bosTau1ToMm6 liftOver (Downloads, Batch Coordinate Conversion utility) |
22 Jul 2005 |
|
Known Genes (Exon Primer Link) |
20 Jul 2005 |
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STS Markers on Genetic and Radiation Hybrid Maps |
12 Jul 2005 |
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canFam1ToMm6 and mm6ToCanFam1 liftOver (Downloads, Batch Coordinate Conversion utility) |
05 Jul 2005 |
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Known Gene rebuild using new filters plus Gene Sorter, Proteome Browser initial release. |
30 Jun 2005 |
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NIA Mouse Gene Index 5.0 |
24 Jun 2005 |
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SGP Gene Predictions Using Mouse/Human Homology (provided by GRIB) |
15 Jun 2005 |
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mouseLandscape microarray columns for Gene Sorter |
07 Jun 2005 |
|
mm6ToRn3 liftOver (Downloads and browser Batch Coordinate Conversion utility) |
06 Jun 2005 |
|
mm6ToHg17 liftOver (Downloads and browser Batch Coordinate Conversion utility) |
01 Jun 2005 |
|
Geneid Genes |
27 May 2005 |
|
Restriction Enzyme mapping (REbase release 505). |
24 May 2005 |
|
Expression and Regulation tracks: GNF Atlas 2, Rinn Sex Exp, GNF U74A, GNF U74B, GNF U74C, Affy GNF1M, Affy U74, Affy MOE430 |
11 May 2005 |
|
10-Way Vertebrate Multiz Alignment & Conservation
|
10 May 2005 |
|
Initial mm6 Release (using NCBI build 34): Chromosome Band, Assembly, Gap, Map Contigs, GC Percent, Known Genes, Genscan Genes, MGC Genes, RefSeq Genes, Mouse mRNAs, Non-Mouse mRNAs, Mouse ESTs, Mouse Spliced ESTs, Non-Mouse ESTs, CpG Islands, Chicken Chain/Net, Chimp Chain/Net, Cow Chain/Net, Dog Chain/Net, Fugu Chain/Net, Human Chain/Net, Opossum Chain/Net, Rat Chain/Net, Tetraodon Chain/Net, X. tropicalis Chain/Net, Zebrafish Chain/Net, RepeatMasker, Simple Repeats, Self Chain. Downloads: bigZips, chromosomes, database, comparatives. |
04 May 2005 |
| |
|
|
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Mouse May 2004 (mm5, NCBI Build 33) |
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| |
| Track/Table Name |
Release Date
|
|
Added NCBI Clone Validation information to details of MGC genes |
12 Jan 2007 |
|
Improved searching capability for Known Genes |
03 Feb 2006 |
|
Mouse liftOvers: mm3, mm4, mm5, mm6 -> mm7; mm5-> galGal2; mm6 -> galGal2, monDom1, xenTro1, canFam2, hg16, panTro1, danRer2, fr1, tetNig1 |
21 Dec 2005 |
|
VisiGene in-situ image viewer (Known Genes details) |
09 Dec 2005 |
|
Riken CAGE |
08 Dec 2005 |
|
Riken CAGE TC |
08 Dec 2005 |
|
hgBlastTab (synch with updated Known Genes in hg17) |
01 Aug 2005 |
|
mm5ToBosTau1 and bosTau1ToMm5 liftOver (Downloads, Batch Coordinate Conversion utility) |
22 Jul 2005 |
|
rn3ToMm5 and mm5ToRn3 liftOver (Downloads, Batch Coordinate Conversion utility) |
05 Jul 2005 |
|
SGP Genes (reloaded; original set was missing chrX) |
27 May 2005 |
|
SNPs (dbSNP build 124) |
10 Mar 2005 |
|
Map Contigs (non-C57BL contigs removed) |
04 Mar 2005 |
|
Ensembl Genes (update ensGene table to correct chrMT -> chrM) |
01 Mar 2005 |
|
TIGR Gene Index |
10 Jan 2005 |
|
Genscan (removed extensions) |
07 Jan 2005 |
|
Zebrafish (danRer2) Chain and Net |
06 Jan 2005 |
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