This page lists releases of
ENCODE data submitted to the UCSC Genome Browser for data storage
and display during the pilot phase of ENCODE (2003 - 2007).
Most of these datasets
were restricted to the defined ENCODE regions.
| Data |
Date |
Cell Lines |
| Affy EC RNA (chr21 and chr22) |
16 Apr 2008 |
16 cell lines |
| Harvard SCONE Cons (update) |
19 Oct 2007 |
|
| BU Orchid (update) |
12 Oct 2007 |
|
| ENCODE hg18 Data Migration and Browser |
8 Oct 2007 |
|
| GIS RNA and ChIP-PET (3 new datasets) |
28 Sept 2007 |
ES cells |
| UC Davis ChIP-chip - Mar07 Batch |
24 July 2007 |
HeLa, GM06990 |
| Yale ChIP-chip - Jun07 Batch |
13 Jul 2007 |
HeLa |
| Yale ChIP-chip - Apr07 Batch |
13 Jul 2007 |
HeLa |
| Yale ChIP-chip - Jan07 Batch |
13 Jul 2007 |
HeLa, K562 |
| Yale ChIP-chip - Nov06 Batch |
13 Jul 2007 |
HeLa, GM06990 |
| Univ. Virginia - Replication Origins (new methods) |
30 May 2007 |
HeLa, GM06990 |
| Duke DnaseI HS Feb07 Batch |
21 May 2007 |
IMR90, K562, H9 |
| Gencode Genes Mar07 Batch, Gencode RACEfrags |
18 May 2007 |
|
| Gencode RACE Frags |
18 May 2007 |
|
| UC Davis ChIP Hits (E2F1 and c-Myc Peaks update) |
17 Apr 2007 |
HeLa |
| Univ. Virginia DNA Replication Temporal Segmentation (Data correction) |
17 Apr 2007 |
HeLa |
| Sanger ChIP-chip (update, CTCF and 4 histone mods) |
21 Feb 2007 |
GM06990 |
| Yale ChIP-chip RFBR |
21 Feb 2007 |
|
| University of Vienna RNA secondary structure predicted by RNAz |
13 Feb 2007 |
|
| UW/Regulome QCP Dnase HS (update and new cell lines) |
7 Dec 2006 |
HeLa, GM06990, CD4, K562, HepG2 and 11 others |
| Duke/NHGRI DNaseI HS (New Chip method) |
5 Dec 2006 |
CD4, GM06990, HeLaS3, HepG2 |
| UT-Austin STAGE (STAT1) |
29 Nov 2006 |
HeLa S3 |
| Genome Inst. Singapore ChIP/PET (cMyc) |
7 Nov 2006 |
P493 B cells |
| TBA Alignments, Conservation, Elements
| 5 Oct 2006 |
|
| MLAGAN Alignments, Conservation, Elements |
5 Oct 2006 |
|
| MAVID Alignments, Conservation, Elements |
5 Oct 2006 |
|
| UCB Alignment Agreement |
5 Oct 2006 |
|
| Conserved Elements (Sep05 MSA freeze) |
5 Oct 2006 |
|
| U North Carolina FAIRE (correction of Peaks data) |
21 Aug 2006 |
2091 fibroblasts |
| Sanger Chip/Chip in MOLT4 and PTR8 cells |
18 Aug 2006 |
HLF-1 |
| University of Uppsala Chip/chip (H3Ac, H4Ac, butyrate treatment) |
26 June 2006 |
HepG2 |
| U North Carolina FAIRE (update of Peaks data) |
15 June 2006 |
2091 fibroblasts |
| UW/Regulome Dnase/Array |
13 June 2006 |
GM06990 |
| Sanger Chip/Chip in HLF-1 cells |
24 May 2006 |
HLF-1 |
| DLESS (Detection of LinEage Specific Selection) |
19 May 2006 |
|
| Yale ChIP-chip (5 new TFs) |
13 Jan 2006 |
HeLa |
| Yale RNA (update) |
2 Jan 2006 |
|
| University of Uppsala Chip/chip (data correction) |
3 Jan 2006 |
|
| UT-Austin STAGE |
28 Dec 2005 |
HeLa |
| U Virginia DNA Replication Timing and Predicted Origins |
29 Dec 2004 |
HeLa |
| Affy RNA and Transfrags (HeLa update) |
21 Dec 2005 |
HeLa |
| Sanger ChIP-chip (5 histone mods) |
22 Nov 2005 |
HeLa, GM06990, K562 |
| U North Carolina FAIRE (Formaldehyde Assisted Isolation of Regulatory Elements |
18 Nov 2005 |
2091 fibroblasts |
| UC Davis ChIP-chip (Pol2, Myc) |
19 Nov 2005 |
HeLa |
| Affy ChIP-chip (updates and 3 new TFs) |
18 Nov 2005 |
HL-60 |
| Affy RNA and Transfrags (update) |
1 Nov 2005 |
HL-60, HeLa, GM06990 |
| UT-Austin Ng ChIP-chip (E2F4, c-Myc factors) |
1 Nov 2005 |
HeLa, 2091 fibroblasts |
| GIS PET RNA (update) |
1 Nov 2005 |
MCF7 (untreated, and w/ estrogen), HCT116 |
| Gencode Genes and Introns (update) |
1 Nov 2005 |
|
| NHGRI DNaseI HS (update and new GM06990) |
1 Nov 2005 |
CD4, GM06990 |
| UCSD/LI Ng ChIP-chip (update and new TFs) |
27 Oct 2005 |
HeLa |
| GIS ChIP/PET (STAT1) |
14 Oct 2005 |
HeLa |
| Boston University ORChID (update) |
21 Sept 2005 |
| TBA23 EvoFold RNA Structure Predictions |
15 July 2005 |
| Regulome DNaseI HS and Sens |
14 July 2005 |
| Regulome Plate Q/A and Amplicons |
14 July 2005 |
| MSA Consensus Elements |
14 July 2005 |
| TBA alignments with Conservation |
14 July 2005 |
| Stanford MLAGAN Alignments and Conservation |
14 July 2005 |
| Oxford Recombination |
13 July 2005 |
| EGASP Genes Full, Partial and Update |
6 July 2005 |
| Stanford DNA Methylation |
6 July 2005 |
| Stanford ChIP-chip and RNA |
6 July 2005 |
| RIKEN FANTOM3 CAGE Tags |
6 July 2005 |
| EGASP Gene Updates |
5 July 2005 |
| HapMap SNP's |
5 July 2005 |
| NHGRI WGS Indels |
1 July 2005 |
| Sanger Association |
1 July 2005 |
| Sanger ChIP-chip update |
1 July 2005 |
| Yale RNA on Nimblegen |
27 June 2005 |
| Affymetrix ChIP-chip and RNA |
17 June 2005 |
| Yale ChIP-chip on multiple arrays |
17 June 2005 |
| Yale RNA on Affy |
17 June 2005 |
| Gencode Genes and Intron Validation |
14 June 2005 |
| UC Davis E2F1 ChIP-chip |
14 June 2005 |
| Boston University ORChID (Hydroxyl Radical Cleavage) |
14 June 2005 |
| UCSD/Ludwig Institute ChIP-chip on Nimblegen |
13 June 2005 |
| UCSD/Ludwig Institute ChIP-chip |
13 June 2005 |
| GIS RNA PET |
10 June 2005 |
| NHGRI DnaseI HS |
10 June 2005 |
| Sanger Histone Modification ChIP-chip (update) |
9 June 2005 |
| Stanford Promoters (update) |
6 June 2005 |
| University of Virginia DNA Replication Timing (update) |
3 June 2005 |
| Genome Institute of Singapore P53 TFBS ChIP/PET |
24 May 2005 |
| Boston University First Exon |
23 May 2005 |
| UCSD/Ludwig Institute Histone Modification ChIP-chip |
6 May 2005 |
| Sanger Histone Modification ChIP-chip |
7 Apr 2005 |
| Affymetrix ChIP-chip and RNA enrichment |
31 Jan 2005 |
| UCSD/Ludwig Institute ChIP-chip |
5 Nov 2004 |
| University of Virginia DNA Replication Timing |
3 Nov 2004 |
| Stanford Promoters |
2 Nov 2004 |
| NHGRI DNaseI Hypersensitive Sites |
1 Nov 2004 |
