File S1 - DNA Damage Repair Genes Controlling Human Papillomavirus (HPV) Episome Levels under Conditions of Stability and Extreme Instability

This file contains Figure S1-Figure S4, Table S1-Table S4, and Statistical Methods S1. Figure S1, Scatter plot showing effects of PA25 on gene expression of cell cycle and DDR genes in the HPV-negative C33A cervical cancer cell line and in the HPV16 positive SiHa cervical cancer cell line. A total of 7 genes were found to have altered expression in both cell types with only a single gene difference between both. Also see Table S1 in File S1. Note similarity between the two graphs for comparison to Fig. 3B and Table 1. Figure S2, FACS analysis was conducted on cells treated with vehicle (control) or with 10 µM PA25 for 48 h. Values indicated are the % Total cells within the relevant cell cycle period. Figure S3, Control data showing the resulting control mean and SD’s from each of the experimental days from siRNA screen. Figure S4, The coefficient of variation values are well below 5%, and fairly consistent across all experimental days. Table S1, Summary of gene expression changes in HPV-negative (C33A) and HPV-positive (SiHa) cells following treatment with 10 µM PA25. Table S2, CVs for Each Experimental Day. Table S3, All 240 Genes in Dharmacon DDR siRNA Library. Table S4, PCR primer sequences for 22 DDR genes employed in matrix for verification of siRNA specificity. Statistical Methods S1, Control Ct values (Step 1) and Experimental Ct values (Step 2). (DOCX)