The single cell were sorted from male and female mouse at 10 weeks old. The cardiac cells and a portion of endothelial cells were filter out.
Violin plot below shows:
- nGene: Number of genes detected (UMI>0) in each cell.
- nUMI: Number of Unique Molecular Identity identified in each cell.
- percent.mito: Percentage of mitochondrial genes UMIs in all total UMIs.
Note that large number of cells express high level of mitochondrial genes. Is it a reasonable phenomenon for cardiac muscle cells?
The cells were clustering using Seurat,2016. The top 8 PCs were used as imput. No mitochondrion genes were detected as HVG.
Determine statistically significant principal components. We select top 8 pcs for clustering.
tSNE and UMAP are two non-linear dimention reduction algorithm. The clustering results of Seurat are showed. (Resolution=0.2)
Cardica myoblast markers and hemoglobin
Hematopoietic markers
Top 10 markers of each cluster.
Differentially expression stats.
Gene Ontology