Comparison of next generation sequencing, SNaPshot assay and real-time polymerase chain reaction for lung adenocarcinoma EGFR mutation assessment

Table 2 EGFR mutations detected by SNapShot, qPCR and NGS

ID	Tumor cell content (%)	Identified mutations
		qPCR	SNaPShot	NGS
		qPCR	SNaPShot	DNA change	Designation	Total Coverage (%, number of reads)
BM 40	60	T790M	T790M	c.2369C > T,	T790M,	40 % (141),
		L858R	L858R	c.2573 T > G	L858R	23 % (60)
BM 49	25	L858R	L858R	c.2573 T > G	L858R	38 % (321)
BM 65	10	L858R	none	Not detected by automatic analysis
BM 71	6	DEL 19	DEL 19	c.2236_2250delGAATTAAGAGAAGCA	delELREA	73 % (2467)
BM 72	40	L858R	L858R	c.2573 T > G	L858R	61 % (554)
BM 75	48	G719X	G719X	c.2155G > A,	G719S,	24 % (63),
				c.2327G > A	R776H,	58 % (28),
BM 76	2	DEL 19	none	Not detected by automatic analysis
BM 82	24	L858R	L858R	c.2573 T > G	L858R	25 % (129)
BM 101	4	DEL 19	DEL 19	c.2185G > A	G729R,	6 % (10),
				c.2235_2249delGGAATTAAGAGAAGC	delKELREA,	26 % (48),
				c.2260A > C	K754Q,	27 % (50),
				c.2279 T > C	L760P,	6 % (11),
BM 145	14	DEL 19	DEL 19	Not detected by automatic analysis
BM 150	56	DEL 19	DEL 19	Not detected by automatic analysis
BM 157	72	L858R	L858R	c.2573 T > G,	L858R	74 % (792),
BM 159	3	L858R	none	Not detected by automatic analysis
				c.2125G > A,	E709K,	7 % (36),
BM 160	5	L858R	none	Not detected by automatic analysis

ISSN: 1471-2466