|
| Status |
Public on Mar 12, 2016 |
| Title |
Histone H3 globular domain acetylation identifies new class of enhancers |
| Organisms |
Homo sapiens; Mus musculus |
| Experiment type |
Genome binding/occupancy profiling by high throughput sequencing
|
| Summary |
We report the acetylation of lysine residues in the globular domain of H3 (H3K64ac and H3K122ac) marks active gene promoters and also a subset of active enhancers in mouse embryonic stem cells (mESCs), human erythroleukemic cell line (K562). Moreover, we find a novel class of active functional enhancers in ESCs that are marked by H3K122ac but which lack H3K27ac. This work suggests that a more complex analysis of histone acetylation is required to identify enhancers than was previously considered.
|
| |
|
| Overall design |
Examination of histone modifications in mouse ESCs (2 biological replicates) and K562 cells
|
| |
|
| Contributor(s) |
Madapura PM, Grimes G, Bickmore WA |
| Citation(s) |
27089178 |
| |
| Submission date |
Feb 18, 2015 |
| Last update date |
May 15, 2019 |
| Contact name |
Pradeepa M Madapura |
| E-mail(s) |
p.m.madapura@qmul.ac.uk, manthankumar.patel@qmul.ac.uk
|
| Organization name |
Queen Mary University of London
|
| Lab |
Pradeepa Madapura
|
| Street address |
4 Newark Street, Whitechapel
|
| City |
London |
| State/province |
UK |
| ZIP/Postal code |
E1 2AT |
| Country |
United Kingdom |
| |
|
| Platforms (3) |
| GPL13112 |
Illumina HiSeq 2000 (Mus musculus) |
| GPL16791 |
Illumina HiSeq 2500 (Homo sapiens) |
| GPL17021 |
Illumina HiSeq 2500 (Mus musculus) |
|
| Samples (10)
|
|
| Relations |
| Affiliated with |
GSE43103 |
| BioProject |
PRJNA275703 |
| SRA |
SRP055121 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE66023_46C_H3K122_merge.merged.sorted-W200-G600-islands-summary-FDR0.01.bed.gz |
2.9 Mb |
(ftp)(http) |
BED |
| GSE66023_46C_H3K122acmerged.10bpres.bedGraph.gz |
81.6 Mb |
(ftp)(http) |
BEDGRAPH |
| GSE66023_46C_H3K27ac.merged.sorted-W200-G200-islands-summary-FDR0.01.bed.gz |
3.8 Mb |
(ftp)(http) |
BED |
| GSE66023_46C_H3K27acmerged.10bpres.bedGraph.gz |
52.1 Mb |
(ftp)(http) |
BEDGRAPH |
| GSE66023_46C_H3K64ac.merged.sorted-W200-G600-islands-summary-FDR0.01.bed.gz |
1.8 Mb |
(ftp)(http) |
BED |
| GSE66023_46C_H3K64acmerged.10bpres.bedGraph.gz |
88.3 Mb |
(ftp)(http) |
BEDGRAPH |
| GSE66023_RAW.tar |
171.3 Mb |
(http)(custom) |
TAR (of BED, BEDGRAPH) |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
| Processed data are available on Series record |
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