|
| Status |
Public on Mar 08, 2017 |
| Title |
Genome Wide Characterization of Genome Organization in Mouse ES cells |
| Organisms |
Mus musculus; other sequences |
| Experiment type |
Genome variation profiling by high throughput sequencing
Other
|
| Summary |
The three-dimensional folding of genomes in the eukaryotic nucleus can influence the expression of genes. We used a new method to determine interactions between different chromatin regions genome-wide. Using a simple statistical model, we determine the subset of those interactions which represent stable contacts. We find an enrichment in contacts between active genes, between Polycomb-repressed genes, between enhancer elements and between enhancers and active genes.
|
| |
|
| Overall design |
We used a new method to detect interactions from 490 46C Mouse ES cell derived samples
|
| |
|
| Contributor(s) |
Beagrie R, Scialdone A, Chotalia M, Schueler M, Nicodemi M, Pombo A |
| Citation(s) |
28273065 |
| |
| Submission date |
Jan 12, 2015 |
| Last update date |
May 15, 2019 |
| Contact name |
Robert A Beagrie |
| E-mail(s) |
robert.beagrie@ndcls.ox.ac.uk
|
| Organization name |
MRC Weatherall Institute of Molecular Medicine
|
| Department |
Molecular Haematology Unit
|
| Street address |
Headley Way
|
| City |
Oxford |
| ZIP/Postal code |
OX39DS |
| Country |
United Kingdom |
| |
|
| Platforms (2) |
| GPL13112 |
Illumina HiSeq 2000 (Mus musculus) |
| GPL19736 |
Illumina HiSeq 2000 (other sequences) |
|
| Samples (477)
|
|
| Relations |
| BioProject |
PRJNA272507 |
| SRA |
SRP052060 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE64881_chr10_chr10.1Mb.txt.gz |
119.2 Kb |
(ftp)(http) |
TXT |
| GSE64881_chr10_chr10.30kb.txt.gz |
47.2 Mb |
(ftp)(http) |
TXT |
| GSE64881_chr11_chr11.1Mb.txt.gz |
105.6 Kb |
(ftp)(http) |
TXT |
| GSE64881_chr11_chr11.30kb.txt.gz |
41.1 Mb |
(ftp)(http) |
TXT |
| GSE64881_chr12_chr12.1Mb.txt.gz |
104.1 Kb |
(ftp)(http) |
TXT |
| GSE64881_chr12_chr12.30kb.txt.gz |
37.3 Mb |
(ftp)(http) |
TXT |
| GSE64881_chr13_chr13.1Mb.txt.gz |
103.3 Kb |
(ftp)(http) |
TXT |
| GSE64881_chr13_chr13.30kb.txt.gz |
42.9 Mb |
(ftp)(http) |
TXT |
| GSE64881_chr14_chr14.1Mb.txt.gz |
109.2 Kb |
(ftp)(http) |
TXT |
| GSE64881_chr14_chr14.30kb.txt.gz |
40.4 Mb |
(ftp)(http) |
TXT |
| GSE64881_chr15_chr15.1Mb.txt.gz |
73.8 Kb |
(ftp)(http) |
TXT |
| GSE64881_chr15_chr15.30kb.txt.gz |
31.4 Mb |
(ftp)(http) |
TXT |
| GSE64881_chr16_chr16.1Mb.txt.gz |
65.8 Kb |
(ftp)(http) |
TXT |
| GSE64881_chr16_chr16.30kb.txt.gz |
28.0 Mb |
(ftp)(http) |
TXT |
| GSE64881_chr17_chr17.1Mb.txt.gz |
61.9 Kb |
(ftp)(http) |
TXT |
| GSE64881_chr17_chr17.30kb.txt.gz |
27.4 Mb |
(ftp)(http) |
TXT |
| GSE64881_chr18_chr18.1Mb.txt.gz |
54.8 Kb |
(ftp)(http) |
TXT |
| GSE64881_chr18_chr18.30kb.txt.gz |
24.5 Mb |
(ftp)(http) |
TXT |
| GSE64881_chr19_chr19.1Mb.txt.gz |
23.0 Kb |
(ftp)(http) |
TXT |
| GSE64881_chr19_chr19.30kb.txt.gz |
12.6 Mb |
(ftp)(http) |
TXT |
| GSE64881_chr1_chr1.1Mb.txt.gz |
283.8 Kb |
(ftp)(http) |
TXT |
| GSE64881_chr1_chr1.30kb.txt.gz |
100.5 Mb |
(ftp)(http) |
TXT |
| GSE64881_chr2_chr2.1Mb.txt.gz |
236.4 Kb |
(ftp)(http) |
TXT |
| GSE64881_chr2_chr2.30kb.txt.gz |
88.1 Mb |
(ftp)(http) |
TXT |
| GSE64881_chr3_chr3.1Mb.txt.gz |
189.0 Kb |
(ftp)(http) |
TXT |
| GSE64881_chr3_chr3.30kb.txt.gz |
64.3 Mb |
(ftp)(http) |
TXT |
| GSE64881_chr4_chr4.1Mb.txt.gz |
178.7 Kb |
(ftp)(http) |
TXT |
| GSE64881_chr4_chr4.30kb.txt.gz |
62.4 Mb |
(ftp)(http) |
TXT |
| GSE64881_chr5_chr5.1Mb.txt.gz |
167.8 Kb |
(ftp)(http) |
TXT |
| GSE64881_chr5_chr5.30kb.txt.gz |
60.0 Mb |
(ftp)(http) |
TXT |
| GSE64881_chr6_chr6.1Mb.txt.gz |
156.5 Kb |
(ftp)(http) |
TXT |
| GSE64881_chr6_chr6.30kb.txt.gz |
59.5 Mb |
(ftp)(http) |
TXT |
| GSE64881_chr7_chr7.1Mb.txt.gz |
150.2 Kb |
(ftp)(http) |
TXT |
| GSE64881_chr7_chr7.30kb.txt.gz |
50.4 Mb |
(ftp)(http) |
TXT |
| GSE64881_chr8_chr8.1Mb.txt.gz |
118.3 Kb |
(ftp)(http) |
TXT |
| GSE64881_chr8_chr8.30kb.txt.gz |
45.5 Mb |
(ftp)(http) |
TXT |
| GSE64881_chr9_chr9.1Mb.txt.gz |
109.1 Kb |
(ftp)(http) |
TXT |
| GSE64881_chr9_chr9.30kb.txt.gz |
43.4 Mb |
(ftp)(http) |
TXT |
| GSE64881_segmentation_at_1000000bp.passqc.multibam.txt.gz |
184.2 Kb |
(ftp)(http) |
TXT |
| GSE64881_segmentation_at_30000bp.passqc.multibam.txt.gz |
3.1 Mb |
(ftp)(http) |
TXT |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data are available on Series record |
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