Supplementary Figure 11: Characterization of de novo HERV-H insertions in two engineered human ESC clones. | Nature Genetics

Supplementary Figure 11: Characterization of de novo HERV-H insertions in two engineered human ESC clones.

From: Transcriptionally active HERV-H retrotransposons demarcate topologically associating domains in human pluripotent stem cells

Supplementary Figure 11

(a) Chromosomal view of de novo HERV-H insertions in the HERV-H-ins.clone1 transgenic line. The y-axis shows the counts of Hi-C read pairs with one end mapped to the HERV-H2 sequence. Based on proximity ligation principle, loci with high pileup should harbor HERV-H2 insertion. (b) Same as (a) but for the HERV-H-ins.clone2 transgenic line. (c) Genome browser view showing the Directionality Index (DI) score and transcription levels (RPKM) of the parental and HERV-H inserted cell lines. Note that in HERV-H-ins.clone1, the predicted HERV-H insertion creates a chimeric transcript with PIWIL1, which is not expressed in the other two cell lines. The experiments were repeated twice independently with similar results.

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