|
| Status |
Public on Sep 15, 2023 |
| Title |
Integration of human stem cell-derived in vitro systems and mouse preclinical models identifies complex pathophysiologic mechanisms in retinal dystrophy [mouse_choroid_scRNAseq] |
| Organism |
Mus musculus |
| Experiment type |
Expression profiling by high throughput sequencing
|
| Summary |
We are investigating the AMD-associated gene DRAM2. Our in vitro data showed that DRAM2 loss in human embryonic stem cell derived eye organoids generates a distinct fibroblast-like population secreting proteins related to connective tissue extracellular matrix. We generated Dram2 KO mice and did scRNA-seq on cells from the retina, and did not find any significant difference between DRAM2 KO and WT. However, our data from human organoids indicates that the difference should be in the choroid, and not in the retina of the eye. Indeed, we find that DRAM2 KO cells from mouse choroid have a growth advantage compared with WT. Here we investigate the cell type composition of mouse choroid and identify putative genes responsible for the growth advantage in DRAM2 KO choroid cells.
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| Overall design |
6 total samples. 3 samples of choroid from Dram2 wt/wt mice (as controls); and 3 samples from choroid of Dram2 KO/KO mice. All samples sequenced for single cell RNAseq
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| |
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| Citation(s) |
37691820 |
| |
| Submission date |
Dec 09, 2022 |
| Last update date |
Jul 17, 2024 |
| Contact name |
Christine Clarke |
| E-mail(s) |
clarkec7@gene.com
|
| Organization name |
Genentech
|
| Department |
OMNI Bioinformatics
|
| Street address |
1 DNA Way
|
| City |
South San Francisco |
| State/province |
California |
| ZIP/Postal code |
94080 |
| Country |
USA |
| |
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| Platforms (1) |
| GPL21103 |
Illumina HiSeq 4000 (Mus musculus) |
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| Samples (6)
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| This SubSeries is part of SuperSeries: |
| GSE220627 |
Integration of human stem cell-derived in vitro systems and mouse preclinical models identifies complex pathophysiologic mechanisms in retinal dystrophy |
|
| Relations |
| BioProject |
PRJNA910551 |
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