|
| Status |
Public on Mar 31, 2017 |
| Title |
BRD2 cooperates with CTCF to enforce transcriptional and architectural boundaries |
| Organism |
Mus musculus |
| Experiment type |
Other
|
| Summary |
BET (bromodomain and extraterminal motif) proteins are pharmacologic targets for the treatment of diverse diseases, yet the roles of individual BET family members remain unclear. We find that BRD2 colocalizes with the architectural/insulator protein CCCTC-binding factor (CTCF) genome-wide. To test a role for BRD2 in chromatin architecture we performed HiC in uninduced G1E-ER4 cells (-GATA1), and compared it to HiC in BRD2-depleted G1E-ER4 cells
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| |
|
| Overall design |
HiC in the G1E-ER4 cell line in the uninduced (-GATA1) condition, comparing unedited control cells to two independent G1E-ER4-derived cell lines in which BRD2 was depleted to undetectable levels using CRISPR/Cas9 (C8 = BRD2 KO cell line #1, D = BRD2 KO cell line #2).
|
| |
|
| Contributor(s) |
Hsu SC, Gilgenast TG, Blobel GA, Phillips-Cremins JE |
| Citation(s) |
28388437 |
| |
| Submission date |
Feb 28, 2017 |
| Last update date |
May 15, 2019 |
| Contact name |
Gerd A Blobel |
| E-mail(s) |
blobel@email.chop.edu
|
| Organization name |
University of Pennsylvania Children's Hospital of Philadelphia
|
| Department |
Pediatrics/Hematology
|
| Street address |
3615 Civic Center Blvd, ARC 315
|
| City |
Philadelphia |
| State/province |
PA |
| ZIP/Postal code |
19104 |
| Country |
USA |
| |
|
| Platforms (1) |
| GPL19057 |
Illumina NextSeq 500 (Mus musculus) |
|
| Samples (6)
|
| GSM2514765 |
G1E-ER4 uninduced replicate 1 HiC |
| GSM2514766 |
C8_BRD2KO G1E-ER4 uninduced replicate 1 HiC |
| GSM2514767 |
D_BRD2KO G1E-ER4 uninduced replicate 1 HiC |
| GSM2514768 |
G1E-ER4 uninduced replicate 2 HiC |
| GSM2514769 |
C8_BRD2KO G1E-ER4 uninduced replicate 2 HiC |
| GSM2514770 |
D_BRD2KO G1E-ER4 uninduced replicate 2 HiC |
|
| This SubSeries is part of SuperSeries: |
| GSE95804 |
The BET protein BRD2 cooperates with CTCF to enforce transcriptional and architectural boundaries |
|
| Relations |
| BioProject |
PRJNA377236 |
| SRA |
SRP100828 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE95476_10kb_C8_BRD2KO_G1E-ER4_uninduced_iced_interchromosomal_contact_matrices.tar.gz |
548.9 Mb |
(ftp)(http) |
TAR |
| GSE95476_10kb_C8_BRD2KO_G1E-ER4_uninduced_qnormed_interchromosomal_contact_matrices.tar.gz |
121.6 Mb |
(ftp)(http) |
TAR |
| GSE95476_10kb_C8_BRD2KO_G1E-ER4_uninduced_raw_interchromosomal_contact_matrices.tar.gz |
247.9 Mb |
(ftp)(http) |
TAR |
| GSE95476_10kb_D_BRD2KO_G1E-ER4_uninduced_iced_interchromosomal_contact_matrices.tar.gz |
525.4 Mb |
(ftp)(http) |
TAR |
| GSE95476_10kb_D_BRD2KO_G1E-ER4_uninduced_qnormed_interchromosomal_contact_matrices.tar.gz |
121.6 Mb |
(ftp)(http) |
TAR |
| GSE95476_10kb_D_BRD2KO_G1E-ER4_uninduced_raw_interchromosomal_contact_matrices.tar.gz |
237.0 Mb |
(ftp)(http) |
TAR |
| GSE95476_10kb_G1E-ER4_uninduced_iced_interchromosomal_contact_matrices.tar.gz |
591.1 Mb |
(ftp)(http) |
TAR |
| GSE95476_10kb_G1E-ER4_uninduced_qnormed_interchromosomal_contact_matrices.tar.gz |
121.6 Mb |
(ftp)(http) |
TAR |
| GSE95476_10kb_G1E-ER4_uninduced_raw_interchromosomal_contact_matrices.tar.gz |
266.5 Mb |
(ftp)(http) |
TAR |
| GSE95476_40kb_C8_BRD2KO_G1E-ER4_uninduced_iced_interchromosomal_contact_matrices.tar.gz |
242.1 Mb |
(ftp)(http) |
TAR |
| GSE95476_40kb_C8_BRD2KO_G1E-ER4_uninduced_qnormed_interchromosomal_contact_matrices.tar.gz |
120.2 Mb |
(ftp)(http) |
TAR |
| GSE95476_40kb_C8_BRD2KO_G1E-ER4_uninduced_raw_interchromosomal_contact_matrices.tar.gz |
104.9 Mb |
(ftp)(http) |
TAR |
| GSE95476_40kb_D_BRD2KO_G1E-ER4_uninduced_iced_interchromosomal_contact_matrices.tar.gz |
229.9 Mb |
(ftp)(http) |
TAR |
| GSE95476_40kb_D_BRD2KO_G1E-ER4_uninduced_qnormed_interchromosomal_contact_matrices.tar.gz |
120.1 Mb |
(ftp)(http) |
TAR |
| GSE95476_40kb_D_BRD2KO_G1E-ER4_uninduced_raw_interchromosomal_contact_matrices.tar.gz |
99.6 Mb |
(ftp)(http) |
TAR |
| GSE95476_40kb_G1E-ER4_uninduced_iced_interchromosomal_contact_matrices.tar.gz |
229.9 Mb |
(ftp)(http) |
TAR |
| GSE95476_40kb_G1E-ER4_uninduced_qnormed_interchromosomal_contact_matrices.tar.gz |
120.1 Mb |
(ftp)(http) |
TAR |
| GSE95476_40kb_G1E-ER4_uninduced_raw_interchromosomal_contact_matrices.tar.gz |
105.4 Mb |
(ftp)(http) |
TAR |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data are available on Series record |
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