Table 3. CCLE cell lines variants as detected by ActSeq panel.

Cell_line	Gene	Entrez_ID	Chr	Start	End	Variant_Type	Ref	Alt	Protein.Change	CCLE_VAF	ActSeq_Pos	ActSeq_VAF	AD/DP
OVCAR5	KRAS	3845	12	25398284	25398284	Missense	C	A	p.G12V	0.98	Yes	1.00	1663/1666
OVCAR5	PTPRD	5789	9	8465638	8465638	Missense	C	A	p.R1181L	0.23	No	0.00	0/1763
OVCAR5	RET	5979	10	43596069	43596069	Missense	G	A	p.R79Q	0.43	Yes	0.50	134/268
OVCAR5	CREBBP	1387	16	3817760	3817760	Missense	C	T	p.A1071T	0.63	Yes	0.68	1223/1800
OVCAR8	ERBB2	2064	17	37880998	37880998	Missense	G	T	p.G776V	0.46	Yes	0.48	83/174
OVCAR8	MSH6	2956	2	48027301	48027301	Missense	A	T	p.T727S	0.46	Yes	0.50	454/915
OVCAR8	CTNNB1	1499	3	41266080	41266080	Missense	A	G	p.Q26R	0.36	Yes	0.34	534/1560
OVCAR8	APC	324	5	112174964	112174964	Missense	G	T	p.A1225S	0.20	Yes	0.37	631/1700
OVCAR8	NOTCH1	4851	9	139399891	139399891	Missense	G	A	p.P1486L	0.24	Yes	0.67	623/936
OVCAR8	ATM	472	11	108123578	108123578	Missense	G	T	p.V613L	0.45	Yes	0.53	921/1744
OVCAR8	KRAS	3845	12	25378636	25378636	Missense	G	T	p.P121H	0.39	Yes	0.47	555/1182
OVCAR8	CREBBP	1387	16	3820773	3820773	Nonsense	G	T	p.S893*	1.00	Yes	1.00	1297/1300
MDAMB231	KRAS	3845	12	25398281	25398281	Missense	C	T	p.G13D	0.53	Yes	0.66	642/972
MDAMB231	TP53	7157	17	7577099	7577099	Missense	C	T	p.R280K	0.96	Yes	1.00	1237/1243
MDAMB231	BRAF	673	7	140481417	140481417	Missense	C	A	p.G464V	0.52	Yes	0.48	549/1145
MDAMB231	EPHA3	2042	3	89499345	89499345	Nonsense	G	T	p.E839*	0.24	Yes	0.33	183/562
MDAMB231	PDGFRA	5156	4	55129981	55129981	Missense	A	T	p.Y172F	0.33	Yes	0.33	271/817
MDAMB231	MSH3	4437	5	80109433	80109433	Missense	G	A	p.G896R	0.49	Yes	0.34	327/966
MDAMB231	NF1	4763	17	29541474	29541475	Frame_Shift	-	C	p.T467fs	0.87	Yes	0.96	766/796
MDAMB468	TP53	7157	17	7577120	7577120	Missense	C	T	p.R273H	1.00	Yes	1.00	680/682
MDAMB468	BRCA2	675	13	32911387	32911387	Missense	G	C	p.M965I	0.23	No	0.00	0/1304
MDAMB468	FANCA	2175	16	89831471	89831471	Nonsense	G	A	p.Q869*	0.52	Yes	0.47	108/232
MDAMB468	BCOR	54880	X	39923194	39923194	Missense	C	G	p.E1172Q	0.98	Yes	0.99	304/306
MDAMB468	ERBB2	2064	17	37865585	37865585	Frame_Shift	G	-	p.G152fs	0.90	Yes	0.93	201/215
HCC38	TP53	7157	17	7577120	7577120	Missense	C	A	p.R273L	1.00	Yes	1.00	599/602
HCC38	SF3B1	23451	2	198268427	198268427	Missense	T	G	p.Q534P	0.21	No	0.00	0/462
HCC38	PIK3CA	5290	3	178927394	178927394	Missense	G	T	p.W386L	0.23	No	0.00	4/1763
HCC38	TET2	54790	4	106196816	106196816	Missense	C	A	p.H1717N	0.47	Yes	0.34	360/1062
HCC38	PDGFRB	5159	5	149502636	149502636	Missense	T	A	p.N718Y	1.00	Yes	1.00	704/704
HCC1806	TP53	7157	17	7577514	7577515	Frame_Shift	-	TT	p.T256fs	0.80	Yes	0.93	1098/1183
HCC1806	PDGFRB	5159	5	149499081	149499081	Missense	G	A	p.A916V	0.96	Yes	1.00	219/219
SKOV3	PIK3CA	5290	3	178952085	178952085	Missense	A	G	p.H1047R	0.52	Yes	0.48	1090/2257
SKOV3	FBXW7	55294	4	153247288	153247288	Missense	C	A	p.R505L	0.50	Yes	0.47	904/1907
SKOV3	TP53	7157	17	7579420	7579420	Frame_Shift	G	-	p.P89fs	0.86	Yes	0.90	358/399
SKOV3	ARID1A	8289	1	27058048	27058048	Nonsense	C	T	p.Q586*	0.50	Yes	0.49	121/247
SKOV3	ROS1	6098	6	117725466	117725466	Missense	G	C	p.L139V	0.43	Yes	0.44	299/686
SKOV3	NRG1	3084	8	32453468	32453468	Missense	A	G	p.N75D	0.19	Yes	0.03	28/965
SKOV3	FLT3	2322	13	28636197	28636197	Missense	A	C	p.S59A	0.56	Yes	0.62	397/643
SKOV3	NF1	4763	17	29653106	29653106	Missense	G	T	p.G1702C	0.45	Yes	0.50	841/1678
SKOV3	CIC	23152	19	42778253	42778253	Missense	T	C	p.F773S	0.48	Yes	0.45	233/517
SKOV3	NCOA3	8202	20	46262371	46262371	Missense	T	G	p.Y319D	0.52	Yes	0.50	866/1728
SKOV3	APC	324	5	112175952	112175952	Frame_Shift	A	-	p.E1554fs	0.16	Yes	0.03	57/1750

Note: AD, number of variant supporting reads in ActSeq; DP, total depth of reads in ActSeq.