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. 2023 Jun 15;30(7):1811–1828. doi: 10.1038/s41418-023-01182-5

Fig. 9. R-loops are processed into DNA double-strand breaks by XPF and XPG in NKAP or HDAC3 depletion cells.

Fig. 9

A Quantification of γH2AX foci in cells following transfection with control, XPF, NKAP or a combination of both siRNAs for 48 h. The graph shows the number of foci per cell. ****P < 0.0001 (Mann–Whitney U-test, two-tailed). B Quantification of γH2AX foci in cells following transfection with control, XPG, NKAP or a combination of both siRNAs for 48 h. The graph shows the number of foci per cell. ****P < 0.0001 (Mann–Whitney U-test, two-tailed). C and D Western blot analysis using indicated antibodies. Lysates were prepared from cells as in (A and B), respectively. GAPDH serves as a loading control. E Quantification of γH2AX foci in cells following transfection with control, XPF, HDAC3 or a combination of both siRNAs for 48 h. The graph shows the number of foci per cell. ****P < 0.0001 (Mann–Whitney U-test, two-tailed). F Quantification of γH2AX foci in cells following transfection with control, XPG, HDAC3 or a combination of both siRNAs for 48 h. The graph shows the number of foci per cell. ****P < 0.0001 (Mann–Whitney U-test, two-tailed). G and H Western blot analysis using indicated antibodies. Lysates were prepared from cells as in E and F, respectively. GAPDH serves as a loading control. I–L Quantification of S9.6 fluorescence staining in cells following transfection with indicated siRNAs for 48 h. The graph shows the S9.6 intensity per nucleus. ****P < 0.0001 (Mann–Whitney U-test, two-tailed). a.u. indicates arbitrary units. Data are presented as Mean ± standard error of the mean (SEM).