Table 1.

Frequency of KDM genetic alterations and expression levels in breast cancer

		DNA Alterations						mRNA Expression Levels
Gene	Location	Amp	Gain	Diploid	Hetloss	Homdel	Mutation	Z Score>=1	1>Z Score>−1	Z Score<=−1
KDM5B	1q32.1	13.20	62.68	22.56	1.56	0.00	1.23	45.57	48.87	5.57
KDM2A	11q13.2	5.20	22.35	58.11	14.35	0.00	1.02	26.80	57.22	15.98
KDM8	16p12.1	4.26	47.30	40.75	7.69	0.00	0.00	27.32	58.87	13.81
KDM5A	12p11	4.05	22.14	60.60	12.99	0.21	0.61	24.23	58.56	17.22
KDM4C	9p24.1	2.29	14.97	53.12	29.00	0.62	0.82	18.35	55.15	26.49
KDM1B	6p22.3	2.18	24.32	59.98	13.31	0.21	0.10	21.44	65.46	13.09
JARID2	6p22.3	2.08	24.53	59.98	13.10	0.31	0.31	18.56	68.76	12.68
KDM4A	1p34.1	1.77	13.51	57.07	27.65	0.00	0.82	16.49	59.59	23.92
JMJD1C	10q21.3	1.46	12.79	64.03	21.52	0.21	1.02	13.61	69.79	16.60
KDM7A	7q34	1.46	26.20	58.63	13.62	0.10	0.41	17.32	72.27	10.41
KDM4D	11q21	1.25	11.54	47.30	39.19	0.73	0.20	11.86	65.67	22.47
MINA	3q11.2	1.25	20.79	68.61	9.25	0.10	0.10	20.21	67.84	11.96
KDM4B	19p13.3	1.25	14.45	58.63	25.47	0.21	0.41	13.71	60.31	25.98
KDM5C	Xp11.22	1.14	15.90	66.53	16.01	0.42	0.82	17.94	67.94	14.12
KDM4E	11q21	1.14	11.64	47.30	39.19	0.73	0.00	7.42	92.58	0.00
PHF8	Xp11.22	1.14	16.53	66.74	15.38	0.21	0.92	12.99	76.91	10.10
KDM6A	Xp11.2	0.83	14.86	66.22	17.57	0.52	1.54	16.49	66.91	16.60
KDM2B	12q24.31	0.52	16.94	62.68	19.75	0.10	0.51	13.30	78.45	8.25
PHF2	9q22.31	0.42	12.37	59.15	27.65	0.42	0.31	14.02	59.59	26.39
KDM3B	5q31	0.31	20.27	57.90	21.41	0.10	0.92	15.26	62.58	22.16
KDM3A	2p11.2	0.21	15.18	69.44	15.07	0.10	0.61	14.02	74.43	11.55
KDM6B	17p13.1	0.10	5.30	33.58	60.08	0.94	0.20	8.04	67.32	24.64
NO66	14q24.3	0.10	12.16	56.03	31.39	0.31	0.31	13.71	64.43	21.86
KDM1A	1p36.12	0.00	5.82	53.53	40.23	0.42	0.31	11.65	74.02	14.33

Amp=high-level amplification; Gain=low-level gain; Hetloss=heterozygous deletion; Homdel= homozygous deletion. Genes were ranked based on the frequency of high-level amplification.