This page contains links to directories containing raw and processed
data for ENCODE data produced as part of the ENCODE production phase
(September 2007-present). For bulk download, retrieval by
FTP
is recommended.
All files here are covered by the
ENCODE data release policy.
| Yale TFBS |
ENCODE Transcription Factor Binding Sites by ChIP-seq from Yale/UC-Davis/Harvard |
| Broad Histone |
ENCODE Histone Modifications by Broad Institute ChIP-seq |
| SUNY RBP |
ENCODE SUNY Albany RNA Binding Proteins by RIP-chip |
| Gencode Genes |
ENCODE Gencode Gene Annotations |
| HAIB TFBS |
ENCODE Transcription Factor Binding Sites by
ChIP-seq from HudsonAlpha Institute |
| RIKEN CAGE Loc |
ENCODE RIKEN RNA Subcellular Localization by CAGE Tags |
| Open Chromatin |
ENCODE Open Chromatin, Duke/UNC/UT |
| Affy RNA Loc |
ENCODE Affymetrix/CSHL Subcellular RNA Localization by Tiling Array |
| Helicos RNA-seq |
ENCODE Helicos RNA-seq |
| CSHL Long RNA-seq |
ENCODE Cold Spring Harbor Labs Long RNA-seq |
| UW DNaseI HS |
ENCODE Univ. Washington DNaseI Hypersensitivity by Digital DNaseI |
| Common Cell CNV |
ENCODE Common Cell Type Copy Number Variation, by Illumina 1M and CBS |
| HAIB Methyl27 |
ENCODE HudsonAlpha CpG Methylation by Illumina Methyl27 |
| HAIB Methyl-seq |
ENCODE HudsonAlpha Methyl-seq |
| NHGRI NRE |
ENCODE NHGRI Elnitski Negative Regulatory Elements |
| CSHL Sm RNA-seq |
ENCODE Cold Spring Harbor Labs Small RNA-seq |
| UW Affy Exon |
ENCODE UW Affy All-Exon Arrays |
| Caltech RNA-seq |
ENCODE Caltech RNA-seq Map Algorithm |
| UW Histone |
ENCODE Histone Modifications by Univ. Washington ChIP-seq |
| GIS DNA PET |
ENCODE Genome Institute of Singapore DNA Paired-End Ditags |
