Figure S4.
The line graphs show normalized RNA-seq coverage across the Msi2 and Sirt1 gene bodies. The x-axis represents the position on chromosomes 11 and 10, respectively, while the y-axis represents normalized coverage. The graphs compare NEPC samples with transposon insertion to SB-negative and SB-positive-non-NEPC controls. The lollipop plots at the bottom reflect the location and sense of insertions in NEPC samples. For Msi2, the line graphs show coverage patterns for NEPC (n equals 2), SB-negative (n equals 12), and SB-positive-non-NEPC (n equals 10) controls. The lollipop plot indicates the position and orientation of insertions on chromosome 11. For Sirt1, the line graphs show coverage patterns for NEPC (n equals 1), SB-negative (n equals 12), and SB-positive-non-NEPC (n=10) controls. The lollipop plot indicates the position and orientation of insertions on chromosome 10. The orientation of insertions is color-coded, with red indicating sense and blue indicating antisense.
Additional analyses of selected CIS-associated genes (related to Fig. 5). Normalized RNA-seq coverage across the Msi2 (top) and Sirt1 (bottom) gene body comparing the NEPC sample with transposon insertion (n = 2 for Msi2 and n = 1 for Sirt1) to SB-negative (n = 12) and SB-positive-non-NEPC (n = 10) controls. Coverage is normalized to maximum within each group. For both Sirt1 and Msi2, coverage patterns may reflect transcriptional effects of insertion, though interpretation is limited by small sample sizes. Bottom lollipop plots reflect location and sense of insertions in NEPC sample(s) analyzed.