Fig. 3

Detection of L1 mRNA expression in MCF7 single cells is sequencing depth dependent. A. The average number of expressed L1 loci detected in 3 MCF7 cells is shown with decreasing read depth (100–10% of total cell reads). The black bars have significantly higher numbers of detected L1 loci compared to the gray bars (Welch’s t-test, 100% vs. 70%, P = 0.019). The lightest gray bars (30–10%) indicate detection of less than half of expressed L1 loci detected with 100% of reads. B. The number of cells expressing L1Hs loci is shown for High and Low coverage MCF7 scRNA-Seq. C. A correlation matrix of L1 loci expressed in 10 MCF7 cells. The L1 loci are listed by number at the top of the matrix and the 10 cells are listed along the left side. Filled boxes indicate that the L1 was expressed in the corresponding cell. Black dots indicate the cells used in (A)