Table 2. Overview of the comparisons between RNA-seq SNVs, COSMIC SNVs and the Yu et al. genotyping panel.

Cell line	COSMIC SNVs	RNA-seq SNVs	Cov.	Conc.	HeLa SNVs	Yu SNPs
COLO205	241	68	28.2%	98.5%	0/1	2/2
DLD1	7649*	2239	29.3%	98.7%	0/1	2/2
HCT15	7649	3356	43.9%	99.3%	0/1	2/2
HCT116a	2428	1122	46.2%	97.5%	0/1	2/2
HCT116b	2428	1003	41.3%	98.3%	0/2	2/2
HKE3	2428*	1379	56.8%	96.2%	0/2	7/7
HT29	462	145	31.4%	98.6%	0/0	2/2
RKO	2676	1112	41.6%	96.5%	0/2	2/2

Coverage (cov.) is defined as the number of COSMIC SNVs that are found in the RNA-seq data, and concordance (conc.) is defined as the proportion of RNA-seq SNVs that match the genotype in COSMIC.

*DLD1 and HKE3 based on COSMIC HCT15 and HCT116 profiles, respectively.