Fig. 3: Assessment of DNA damage in siSMARCA5, siINO80, and siMTA2 cells. | Nature Communications

Fig. 3: Assessment of DNA damage in siSMARCA5, siINO80, and siMTA2 cells.

From: The chromatin network helps prevent cancer-associated mutagenesis at transcription-replication conflicts

Fig. 3

a Percentage of cells with >5 γH2AX foci in control (siC) and SMARCA5, INO80, MTA2-depleted cells that overexpress (+) or not (−) RNH1. Data expressed as relative to siC. Mean + SEM are plotted (n = 4 (siSMARCA5 and siINO80) and n = 6 (siC and siMTA2) independent experiments). (Unpaired Student’s t test, one-tailed). b Quantification of nuclear S9.6 mean signal intensity in siSMARCA5 and siINO80 cells treated as in (a). Data presented as scatter plot (n > 100 cells examined over 3 independent experiments). Median values are indicated. (Mann–Whitney U-test, two-tailed). c DRIP-qPCR analysis of RNAPII (RPL13A, FOXP4, TAF9B) and RNAPI-transcribed genes (5’ and 28S rDNA) of siC, siSMARCA5 (left) and siINO80 (right) cells. Signal values normalized with respect to the siC control and plotted as mean ± SEM (n = 5 (RPL13A, FOXP4 and 5’ rDNA) and n = 4 (TAF9B and 28S rDNA) independent experiments). (Unpaired Student’s t test, one-tailed). Representative images, with nuclear perimeter highlighted (yellow dashed line), are shown. Gene regions amplified by qPCR in DRIP-qPCR experiments are indicated with a red line on drawings of the genes tested. Scale bars and p values are indicated. Source data are provided as a Source data file. See also Supplementary Fig. 3.

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