Differential genome-wide profiling of alternative polyadenylation sites in nasopharyngeal carcinoma by high-throughput sequencing

Table 1 Summary of the SAPAS data from Illumina HiSeq 2000 sequencing

	NPC						NNET
	NPC1	NPC2	NPC3	NPC4	NPC5	NPC6	NNET1	NNET2	NNET3	NNET4	NNET5	NNET6
Raw reads(M*)	26.08	23.81	24.48	25.29	25.14	20.99	25.94	23.91	25.77	24.87	26.97	24.56
Clean reads(M)	25.90	23.54	24.06	24.94	24.94	20.83	25.77	23.59	25.33	24.70	26.64	24.42
Mapped to genome(M)	21.73	19.75	20.02	21.06	21.39	17.45	21.28	19.49	21.09	19.53	19.46	21.10
Uniquely mapped to genome(M)	17.02	16.42	16.11	16.82	17.29	14.33	17.45	15.87	17.75	16.17	15.72	17.48
Mapped to nuclear genome(M)	13.32	14.63	13.11	13.02	14.69	13.34	15.21	14.45	15.71	14.57	13.92	14.76
Passed Internal Priming filter(M)	11.51	9.83	10.18	10.30	12.68	11.36	12.00	11.47	10.01	12.50	12.06	12.36
Genes sampled by reads(10 K)	1.78	1.89	1.88	1.90	1.80	1.83	1.86	1.88	1.91	1.88	1.73	1.87
Poly(A) sites(10 K)	13.70	29.99	17.36	19.04	13.82	12.50	22.75	18.14	36.03	16.28	12.45	14.90
Known poly(A) sites sampled(10 K)	2.75	2.90	2.89	2.89	2.82	2.87	2.84	2.92	2.86	2.97	2.67	2.90
Putative novel poly(A) sites(10 K)	10.95	27.09	14.47	16.15	11.00	9.63	19.91	15.21	33.17	13.31	9.78	12.01
Genes sampled by poly(A) sites(10 K)	1.62	1.72	1.71	1.73	1.63	1.66	1.73	1.72	1.73	1.72	1.53	1.72

ISSN: 1423-0127