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| Status |
Public on Dec 31, 2020 |
| Title |
Nucleome Dynamics during Retinal Development [scRNA-seq/scATAC-seq_Mm] |
| Organism |
Mus musculus |
| Experiment type |
Expression profiling by high throughput sequencing
Genome binding/occupancy profiling by high throughput sequencing
|
| Summary |
Single cell RNA-sequencing shows cell type specific expression of genes in the retina. Single cell ATAC-sequencing of the wild type retina revealed that chromatin in the Vsx2 CRC SE, a stage- and cell type-specific core regulatory circuit super-enhancer (CRC-SE) upstream of the Vsx2 gene, was only open in bipolar cells. Deletion of the Vsx2 CRC-SE in mice led to the loss of bipolar neurons in the retina, which was confirmed by scRNA-sequencing of Vsx2SEKO mice.
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| |
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| Overall design |
Single cell RNA sequencing from adult WT and VSX2SE KO mouse retina and single cell ATAC-sequencing from WT mouse retina.
Please note that the scRNA-seq processed data was generated from multiple samples as indicated in the corresponding sample description field and thus, is linked to the Series records.
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| |
|
| Contributor(s) |
Norrie J, Dyer M |
| Citation(s) |
31493975 |
| |
| Submission date |
Dec 30, 2020 |
| Last update date |
Jan 02, 2021 |
| Contact name |
Michael A Dyer |
| Organization name |
St. Jude Children's Research Hospital
|
| Department |
DNB
|
| Street address |
262 Danny Thomas
|
| City |
Memphis |
| State/province |
Tennessee |
| ZIP/Postal code |
38105 |
| Country |
USA |
| |
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| Platforms (1) |
| GPL24247 |
Illumina NovaSeq 6000 (Mus musculus) |
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| Samples (5)
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| This SubSeries is part of SuperSeries: |
| GSE87064 |
The Dynamic Epigenetic Landscape of the Retina During Development, Reprogramming, and Tumorigenesis |
|
| Relations |
| BioProject |
PRJNA688704 |
| SRA |
SRP299803 |
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