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| Status |
Public on Sep 22, 2022 |
| Title |
The 3D enhancer network of the developing T cell genome is shaped by SATB1 |
| Organism |
Mus musculus |
| Experiment type |
Expression profiling by high throughput sequencing
Genome binding/occupancy profiling by high throughput sequencing
Other
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| Summary |
Mechanisms of tissue-specific gene expression regulation via 3D genome organization are poorly understood. Here we uncover the regulatory chromatin network of developing T cells and identify SATB1, a tissue-specific genome organizer, enriched at the anchors of promoter-enhancer loops. We have generated a T-cell specific Satb1 conditional knockout mouse which allows us to infer the molecular mechanisms responsible for the deregulation of its immune system. H3K27ac HiChIP and Hi-C experiments indicate that SATB1-dependent promoter-enhancer loops regulate expression of master regulator genes (such as Bcl6), the T cell receptor locus and adhesion molecule genes, collectively being critical for cell lineage specification and immune system homeostasis. SATB1-dependent regulatory chromatin loops represent a more refined layer of genome organization built upon a high-order scaffold provided by CTCF and other factors. Overall, our findings unravel the function of a tissue-specific factor that controls transcription programs, via spatial chromatin arrangements complementary to the chromatin structure imposed by ubiquitously expressed genome organizers.
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| Overall design |
This SuperSeries is composed of the SubSeries listed below. Please, refer to individual SubSeries.
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| Citation(s) |
36376298, 37635874 |
| |
| Submission date |
Apr 28, 2021 |
| Last update date |
Sep 14, 2023 |
| Contact name |
Tomas Zelenka |
| E-mail(s) |
tomas.zelenka@moffitt.org
|
| Organization name |
H. Lee Moffitt Cancer Center & Research Institute
|
| Department |
Immunology
|
| Lab |
Avram
|
| Street address |
12902 Magnolia Drive
|
| City |
Tampa |
| State/province |
Florida |
| ZIP/Postal code |
33612 |
| Country |
USA |
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| Platforms (1) |
| GPL21103 |
Illumina HiSeq 4000 (Mus musculus) |
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| Samples (26)
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| This SuperSeries is composed of the following SubSeries: |
| GSE173445 |
The 3D enhancer network of the developing T cell genome is controlled by SATB1 [ATAC-seq] |
| GSE173446 |
The 3D enhancer network of the developing T cell genome is controlled by SATB1 [Hi-C] |
| GSE173470 |
The 3D enhancer network of the developing T cell genome is controlled by SATB1 [RNA-seq] |
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| Relations |
| BioProject |
PRJNA725788 |
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