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Fig. 5 | Mobile DNA

Fig. 5

From: SCIFER: approach for analysis of LINE-1 mRNA expression in single cells at a single locus resolution

Fig. 5

SCIFER detects cell type specific L1 mRNA expression in human testis. A. The number of million mapped reads per cell for each cell type is shown in the individual value plot for two technical replicates of the testis sample from a 24 yo donor. The technical replicates are indicated as gray and blue (ANOVA, **, < 0.005, ***, < 0.0005, ****, < 0.0001). B. L1 mRNA expression quantified by RPM for each cell is shown in the individual value plot for two technical replicates of the testis sample from a 24 yo donor. The technical replicates are indicated as gray and blue (ANOVA, **, < 0.005, ****, < 0.0001). C. The number of expressed L1 loci per cell in each cluster is shown in the individual value plot for two technical replicates of the testis sample from a 24 yo donors. The technical replicates are indicated as gray and blue (ANOVA, ****, < 0.0001). D. The L1 RPM values for L1 loci indicated on the X-axis are shown for each sperm cell type in the combined technical replicates of the testis sample from a 24 yo donor. The Venn Diagram shows the number of expressed L1 loci shared by the sperm cell types with the percentage of shared expressed L1 loci indicated above the diagram. E. The L1 FPKM values for bulk RNA-Seq (left y-axis) and L1 RPM values for scRNA-Seq (right y-axis) of human testis are shown in the dot-plot. Orange circles indicate L1 loci with detected expression in the bulk dataset that were not detected to be expressed in scRNA-Seq. The nested Venn diagram shows the number of shared expressed L1 loci from the bulk and scRNA-Seq datasets. F. The violin plot shows the FPKM values for expressed L1 loci unique to the bulk dataset and those shared between bulk and scRNA-Seq (Welch’s t-test, **, < 0.005)

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