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| Status |
Public on Dec 21, 2021 |
| Title |
ATAC-seq profiling of medullary thymic epithelial cells from wildtype and Kat7-knockout mice |
| Organism |
Mus musculus |
| Experiment type |
Genome binding/occupancy profiling by high throughput sequencing
|
| Summary |
Thymic epithelial cells govern thymic T lymphocyte differentiation and selection. Medullary TECs (mTECs) facilitate the negative selection of self-reactive thymocytes and the differentiation of FOXP3+ regulatory T cells. Medullary TECs are also distinctive for their “promiscuous” gene expression, transcribing thousands of peripheral tissue genes (PTG) that are otherwise only expressed highly in one or two other organs. Much of this PTG expression by mTECs is controlled by the autoimmune regulator, AIRE. To probe the mechanism by which KAT7 promotes AIRE function, we performed ATAC-seq to compare chromatin accessibility in MHCII-high medullary thymic epithelial cells from Kat7-knockout and wildtype mice.
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| Overall design |
Three biological replicates were prepared from wildtype and from Kat7 knockout mice to produce in six ATAC-seq libraries in all. Sequencing was conducted on an Illumina NextSeq 500 to produce 75bp paired-end reads.
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| Contributor(s) |
Smyth GK, Gandolfo LC, Heinlein M, Gray DD |
| Citation(s) |
35061506 |
| |
| Submission date |
Nov 15, 2021 |
| Last update date |
Mar 22, 2022 |
| Contact name |
Gordon K Smyth |
| E-mail(s) |
smyth@wehi.edu.au
|
| Phone |
(+61 3) 9345 2326
|
| Fax |
(+61 3) 9347 0852
|
| URL |
http://www.wehi.edu.au
|
| Organization name |
Walter and Eliza Hall Institute of Medical Research
|
| Department |
Bioinformatics
|
| Lab |
Smyth
|
| Street address |
1G Royal Pde
|
| City |
Parkville |
| State/province |
Vic |
| ZIP/Postal code |
3052 |
| Country |
Australia |
| |
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| Platforms (1) |
| GPL19057 |
Illumina NextSeq 500 (Mus musculus) |
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| Samples (6)
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| This SubSeries is part of SuperSeries: |
| GSE188871 |
RNA-seq and ATAC-seq profiling of thymic epithelial cells from wildtype and Kat7 knockout mice |
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| Relations |
| BioProject |
PRJNA780541 |
| SRA |
SRP346203 |
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