5 Jan 2012 - Human ENCODE data releases: UW Histone, HAIB Methyl450, RIKEN CAGE Loc, UW Affy Exon (Release 2)
Three new tracks and one track update were released on the hg19 genome browser:
Histone Modifications by ChIP-seq from ENCODE/University of Washington:
This track shows genome-wide maps of histone modifications associated with active promoters (H3K4me3), repressed regions (H3K27me3), and active transcription (H3K36me3) in 57 cell types, as identified by ChIP-seq.
CpG Methylation by Methyl 450K Bead Arrays from ENCODE/HAIB:
This track displays the methylation status of specific CpG dinucleotides in 61 cell types as identified by the Infinium Human Methylation 450 Bead Array platform. In general, methylation of CpG sites within a promoter causes silencing of the gene associated with that promoter.
RNA Subcellular CAGE Localization from ENCODE/RIKEN:
This track from the ENCODE Transcriptome group shows 5' cap analysis gene expression (CAGE) tags and clusters.
A total of 34 Experiments were conducted in 12 cell lines and one tissue (prostate), with RNA extracted from 6 isolated cellular compartments and in whole cell.
Affymetrix Exon Array from ENCODE/University of Washington (Release 2):
This track from the ENCODE Transcriptome group shows human tissue miroarray data from the Affymetrix Human Exon 1.0 GeneChip.
Release 2 of this track shows experiments in 14 additional cell lines.
1 Dec 2011 - Mouse ENCODE data releases: Caltech TFBS, Caltech Histone
Two new tracks were released on the mm9 genome browser:
Transcription Factor Binding Sites by ChIP-seq from ENCODE/Caltech:
This track shows 15 ChIP-seq experiments mapping 7 histone marks in the C2C12 myoblast cell line; both untreated cells and cells under timecourse treament with insulin to stimulate myogenesis.
Histone Modifications by ChIP-seq by ChIP-seq from ENCODE/Caltech:
This track shows 26 ChIP-seq experiments mapping 14 transcription factors in the C2C12 myoblast cell line; both untreated cells and cells under timecourse treament with insulin to stimulate myogenesis.
10 Nov 2011 - ENCODE portal changes: New File Formats page and updates to Publications, Data Summaries, and Data Standards
The ENCODE portal was updated to include informative new and expanded pages.
ENCODE-related data file formats are now documented on the new
File Formats page.
Publications page was expanded to a comprehensive list of Consortium
publications, plus methods, resource, and biological findings papers by
Human Data Summary and
Mouse Data Summary spreadsheets detailing ENCODE submissions were updated to reflect
status as of the latest ENCODE quarterly reporting (Sept. 30 2011).
Data Standards section was greatly expanded to include new standards documents (v2.0 ChIP-seq) and a new
Platform Characterization section.
29 Oct 2011 - Human ENCODE data releases: SYDH TFBS, CSHL Long RNA-seq, GIS RNA PET, UW DNaseI HS (release 3), Mapability (Release 3)
Three new tracks and two track updates were released on the hg19 genome browser: