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| Status |
Public on Dec 20, 2021 |
| Title |
PRDM16 Functions as A Compact Myocardium-Enriched Transcription Factor Required to Maintain Compact Myocardial Cardiomyocyte Identity in Left Ventricle (scRNA-seq) |
| Organism |
Mus musculus |
| Experiment type |
Expression profiling by high throughput sequencing
|
| Summary |
The loss of compact myocardial cardiomyocyte (compact CM) identity suggests that PRDM16 deficiency may dramatically alter the cellular composition in left ventricular (LV) compact myocardium. To test this hypothesis, we performed single-cell RNA-seq (scRNA-seq) to examine gene dysreulation in Prdm16cKO heart. We also performed Visium Spatial Transcriptomics (ST) to facilitate mapping CM clusters to their original locations in the heart. As a result, we were able to demonstrate gene misregulation in Prdm16cKO mouse mainly occurred in LV compact CM.
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| Overall design |
Two E13.5 WT heart samples and two E13.5 Prdm16cKO heart samples (each sample included 3-4 individual hearts) were used for scRNA-seq.
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| Contributor(s) |
Wu T, Liang Z, Chen J |
| Citation(s) |
34915728 |
| |
| Submission date |
Jul 03, 2021 |
| Last update date |
Dec 21, 2021 |
| Contact name |
Ju Chen |
| E-mail(s) |
juchen@health.ucsd.edu
|
| Organization name |
University of California San Diego
|
| Street address |
9500 Gilman Drive 0613
|
| City |
La Jolla |
| State/province |
California |
| ZIP/Postal code |
92122 |
| Country |
USA |
| |
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| Platforms (1) |
| GPL24247 |
Illumina NovaSeq 6000 (Mus musculus) |
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| Samples (4)
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| This SubSeries is part of SuperSeries: |
| GSE179393 |
PRDM16 Is a Compact Myocardium-Enriched Transcription Factor Required to Maintain Compact Myocardial Cardiomyocyte Identity in Left Ventricle |
|
| Relations |
| BioProject |
PRJNA743535 |
| SRA |
SRP326797 |
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