Quantitative DNA methylation analyses reveal stage dependent DNA methylation and association to clinico-pathological factors in breast tumors

Klajic, Jovana; Fleischer, Thomas; Dejeux, Emelyne; Edvardsen, Hege; Warnberg, Fredrik; Bukholm, Ida; Lønning, Per Eystein; Solvang, Hiroko; Børresen-Dale, Anne-Lise; Tost, Jörg; Kristensen, Vessela N

doi:10.1186/1471-2407-13-456

Table 3 Methylation status of 12 genes in normal tissue, DCIS and invasive breast cancer patients

From: Quantitative DNA methylation analyses reveal stage dependent DNA methylation and association to clinico-pathological factors in breast tumors

		Normal		DCIS		Invasive
				DCIS		I		II		III		IV
GENE	Methylation status	N	%	Sample number	%	Sample number	%	Sample number	%	Sample number	%	Sample number	%
*ABCB1*	Hypomethylated	0	0	0		0		0		0		0
	Normal like	6	100	15	57.7	33	52.4	6	30	31	36	6	30
	Hypermethylated	0		11	42.3	30	47.6	14	70	57	64	14	70
*BRCA1*	Hypomethylated	0	0	0	0	2	3	2	10	10	12.8	1	5.9
	Normal like	6	100	26	100	63	97	18	90	68	87.2	16	94.1
	Hypermethylated	0		0	0	0		0		0		0
*CDKN2A*	Hypomethylated	0	0	0	0	0		0		0		0
	Normal like	6	100	26	100	60	92.3	18	90	61	67.8	14	70
	Hypermethylated	0		0		5	7.7	2	10	29	32.2	6	30
*ESR1*	Hypomethylated	0	0	0	0	0		0		0		0	0
	Normal like	6	100	26	100	63	97	19	95	63	98.4	19	100
	Hypermethylated	0		0		2	3	1	5	1	1.6	0
*FOXC1*	Hypomethylated	0	0	0		0		0		0		0
	Normal like	6	100	6	23	34	52.3	7	35	40	46.5	10	47.6
	Hypermethylated	0		20	77	31	47.7	13	65	46	53.5	11	52.4
*GSTP1*	Hypomethylated	0	0	1	3.8	0		0		0		0
	Normal like	6	100	10	38.5	27	41.5	5	25	29	33	5	25
	Hypermethylated	0		15	57.7	38	58.5	15	75	59	67	15	75
*IGF2*	Hypomethylated	0	0	11	42.3	25	38.4	6	30	34	39.1	9	47.4
	Normal like	6	100	14	53.8	32	49.2	9	45	32	36.8	5	26.3
	Hypermethylated	0	0	1	3.9	8	12.4	5	25	21	24.1	5	26.3
*MGMT*	Hypomethylated	0	0	0		13	20.3	13	65	16	24.2	8	44.4
	Normal like	6	100	25	96.1	50	78.1	5	25	35	53.1	5	27.7
	Hypermethylated	0		1	3.9	1	11.6	2	10	15	22.7	5	27.7
*MLH1*	Hypomethylated	0	0	4	15.4	12	18.5	6	32	4	4.5	3	17.6
	Normal like	6	100	21	80.8	47	72.3	10	53	68	77.3	13	76.5
	Hypermethylated	0		1	3.8	6	9.2	3	16	16	18.2	1	5.9
*PPP2R2B*	Hypomethylated	0	0	0		0		0		0		0
	Normal like	6	100	7	26.9	15	24.6	6	35	40	30.8	3	16.7
	Hypermethylated	0		19	73.1	46	75.4	11	65	45	69.2	15	83.3
*PTEN*	Hypomethylated	0	0	0		0		0		0		0
	Normal like	6	100	21	80.8	56	86.2	13	65	23	27.7	9	45
	Hypermethylated	0		5	19.2	9	13.8	7	35	60	72.3	11	55
*RASSF1A*	Hypomethylated	0	0	2	7.7	2	3.1	1		0		0
	Normal like	6	100	2	7.7	10	15.4	2	11	3	4.8	1	5.6
	Hypermethylated	0		22	84.6	53	81.5	17	90	60	95.2	17	94.4

Samples were considered as hypermethylated if the% DNA methylation was higher than the sum of two times the standard deviation and mean of the normal samples and hypomethylated if% DNA methylation was lower than two times the standard deviation - mean of the normal samples.

Back to article page

ISSN: 1471-2407

Contact us

Submission enquiries: bmccancer@biomedcentral.com
General enquiries: ORSupport@springernature.com

BMC Cancer

Contact us