|
| Status |
Public on Aug 07, 2019 |
| Title |
Bcl11b prevents catastrophic autoimmunity by controlling multiple aspects of regulatory T-cell gene expression program [ChIP-Seq] |
| Organism |
Mus musculus |
| Experiment type |
Genome binding/occupancy profiling by high throughput sequencing
|
| Summary |
In order to identify Bcl11b-bound sites in Treg cells(WT) and Tn cells and to determine Bcl11n and Foxp3 peak overlaps, we performed Bcl11b and Foxp3 ChIP-seq on respective cell populations. In order to understand whether Bcl11b recruitment to it's target sites is dependent on Foxp3 we performed Bcl111b ChIP-Seq in Tfn cells(derived from Foxp3GFPKO mice). Finally, to ask whether genome-wide occupancy of Foxp3 is affected in the absence of Bcl11b, we performed Foxp3 ChIP-seq in Bcl11b-deficient Treg cells(KO Treg).
|
| |
|
| Overall design |
Genome-wide Chromatin Immunoprecipitation followed by next generation sequencing (ChIP-seq) for each conditions (3 replicates for Bcl11b ChIP in wild type Treg, 3 replicates for Bcl11b ChIP in wild type Tn, 2 replicates for Foxp3 ChIP in wild type Treg, 2 replicates for Bcl11b ChIP in Tfn and 2 replicates for Foxp3 ChIP in Bcl11b KO Treg) was done using Illumina HiSeq 2500.
|
| |
|
| Contributor(s) |
Syed N, Sharma A, Sayantani G, Hong S, Roy-Chowdhuri S, Im S, Kang K, Rudensky A, Rudra D |
| Citation(s) |
31457081 |
| |
| Submission date |
Oct 08, 2018 |
| Last update date |
Sep 03, 2019 |
| Contact name |
Keunsoo Kang |
| E-mail(s) |
kangk1204@gmail.com
|
| Organization name |
Dankook University
|
| Street address |
119 Dandae-ro
|
| City |
Cheonan |
| ZIP/Postal code |
31119 |
| Country |
South Korea |
| |
|
| Platforms (1) |
| GPL17021 |
Illumina HiSeq 2500 (Mus musculus) |
|
| Samples (20)
|
|
| This SubSeries is part of SuperSeries: |
| GSE120948 |
Bcl11b prevents catastrophic autoimmunity by controlling multiple aspects of regulatory T-cell gene expression program |
|
| Relations |
| BioProject |
PRJNA495077 |
| SRA |
SRP164582 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE120947_WT-Treg-Bcl11b_vs_KIKO-Bcl11b_KIKO-Bcl11b-specific.bed.gz |
722 b |
(ftp)(http) |
BED |
| GSE120947_WT-Treg-Bcl11b_vs_KIKO-Bcl11b_WT-Treg-Bcl11b-specific.bed.gz |
32.4 Kb |
(ftp)(http) |
BED |
| GSE120947_WT-Treg-Bcl11b_vs_KIKO-Bcl11b_common.bed.gz |
19.9 Kb |
(ftp)(http) |
BED |
| GSE120947_WT-Treg-Bcl11b_vs_WT-Tn-Bcl11b_WT-Tn-Bcl11b-specific.bed.gz |
6.8 Kb |
(ftp)(http) |
BED |
| GSE120947_WT-Treg-Bcl11b_vs_WT-Tn-Bcl11b_WT-Treg-Bcl11b-specific.bed.gz |
18.9 Kb |
(ftp)(http) |
BED |
| GSE120947_WT-Treg-Bcl11b_vs_WT-Tn-Bcl11b_common.bed.gz |
41.4 Kb |
(ftp)(http) |
BED |
| GSE120947_WT-Treg-Bcl11b_vs_WT-Treg-Foxp3_WT-Treg-Bcl11b-specific.bed.gz |
23.1 Kb |
(ftp)(http) |
BED |
| GSE120947_WT-Treg-Bcl11b_vs_WT-Treg-Foxp3_WT-Treg-Foxp3-specific_.bed.gz |
86.6 Kb |
(ftp)(http) |
BED |
| GSE120947_WT-Treg-Bcl11b_vs_WT-Treg-Foxp3_common.bed.gz |
43.6 Kb |
(ftp)(http) |
BED |
| GSE120947_WT-Treg-Foxp3_vs_Bcl11b-KO-Treg-Foxp3_Bcl11b-KO-Treg-Foxp3-specific.bed.gz |
21.5 Kb |
(ftp)(http) |
BED |
| GSE120947_WT-Treg-Foxp3_vs_Bcl11b-KO-Treg-Foxp3_WT-Treg-Foxp3-specific.bed.gz |
44.3 Kb |
(ftp)(http) |
BED |
| GSE120947_WT-Treg-Foxp3_vs_Bcl11b-KO-Treg-Foxp3_common.bed.gz |
96.3 Kb |
(ftp)(http) |
BED |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data are available on Series record |
Less...
More...