Methylation signature of lymph node metastases in breast cancer patients

BMC Cancer

Table 2 High-throughput methylation analysis of CpG sites per amplicon for the 12 candidate genes

Genes	Amplicon size (bp)	Total No. of CpG sites in amplicon	No. of analyzed CpG sites in amplicon	No. of analyzed CpG sites per amplicons
Genes	Amplicon size (bp)	Total No. of CpG sites in amplicon	No. of analyzed CpG sites in amplicon	Single sites	Composite sites
APC	420	26	11	9	2
BIN1	330	32	12	3	9
BMP6	397	37	26	9	17
BRCA1	413	30	15	10	5
CST6	445	49	19	11	8
ESR-b (ER beta)	374	30	13	6	7
GSTP1	381	23	16	11	5
P14	425	36	22	5	17
P16 (CDKN2A)	580	62	38	12	26
P21 (CDKN1A)	419	30	9	8	1
PTEN	451	34	29	10	19
TIMP3v	441	51	40	12	38

The in silico digestion was performed for the T-cleavage assay. The percentage of total CpG sites in the amplicon is divided into single sites (single CpG sites) and composite sites (two or more adjacent CpG sites fall within one fragment, or when fragment masses are overlapping).

ISSN: 1471-2407