Table 1.

Summary of genes analyzed by high-throughput RNA sequencing (RNA-Seq) and significant XPA-related differences.

Cell lines (XPA− vs. XPA+)	Genes Analyzed	FDR 0.05 (High + Low)	FC ≥ 1.5 (High + Low)
XP2OS vs. XPA/XP2OS	14117	9526	1721 + 2206
XP12RO vs. XPA/XP12RO	13669	10283	2750 + 2625
KO38 vs. HeLa S3	14564	9520	1769 + 1701
KO142 vs. HeLa S3	13824	8364	1642 + 1422
Common genes	12022	176 + 149	11 + 16

The first column shows the number of genes analyzable by RNA-Seq for each XPA-proficient/deficient cell pair. The second column shows the number of genes with differential expression at a False Discovery Rate (FDR) of 0.05. The ratio of gene expression was calculated for XPA+/XPA− for each cell pair; positive log 2 values are termed “high” and negative log 2 values are termed “low”. The third column shows for each cell pair the number of “high” or “low” genes with fold change (FC) of 1.5 or more.