Germline DNA copy number variation in familial and early-onset breast cancer

Breast Cancer Research

Table 3 Genomic positions (build 36-Hg18), size, type and affected genes of the 26 rare copy number variations identified in patients^a

Chromosome	Cytoband	Start site	Size (bp)	CNV type	Gene Names	Patient
chr1	p31.1	76,801,602	550,723	del	ST6GALNAC3, ST6GALNAC5, PIGK	3
chr1	q44	243,610,556	153,230	del	KIF26B	16
chr1	p32.1	59,559,568	41,339	del	FGGY	15
chr2	p25.1	9,165,985	192,606	del	ASAP2	21
chr2	q22.2	143,463,273	300,408	dup	KYNU, ARHGAP15	7
chr2	q32.2	190,015,149	45,366	dup	WDR75	28
chr3	p24.3	18,759,412	635,060	dup	KCNH8, MIR4791	11
chr3	q28	193,405,249	135,458	dup	FGF12	1
chr4	q31.3	152,508,270	136,605	del	FAM160A1	29
chr6	p12.1	55,468,168	33,031	dup	HMGCLL1	30
chr9	p21.3	20,661,515	136,814	del	KIAA1797, MIR491	13
chr9	p24.1	5,130,196	168,153	del	INSL6, INSL4, RLN2	20
chr9	q31.3	111,832,790	340,164	del	PALM2-AKAP2, AKAP2, C9orf152, TXN, TXNDC8, SVEP1	22
chr10	p13	16,970,291	103,018	dup	CUBN	19
chr11	q12.3	62,290,497	38,091	dup	POLR2G, TAF6L, TMEM179B, TMEM223, NXF1	25
chr16	q23.3	81,315,382	136,618	del	CDH13	5
chr16	q11.2	45,058,042	198,742	dup	ANKRD26P1, SHCBP1, VPS35	6
chr17	q25.1	71,478,161	33,362	dup	ACOX1, TEN1, CDK3	5
chr18	q12.1	27,990,329	64,132	dup	MEP1B	18
chr21	q21.3	29,391,572	496,425	del	C21orf7, LINC00189, BACH1, GRIK1	8
chr21	q22.3	46,538,913	210,594	dup	YBEY, C21orf58, PCNT, DIP2A	12
chrX	q22.3	109,193,988	31,659	del	TMEM164, MIR3978	23
chrX	q25	126,971,799	88,694	del	ACTRT1	17
chrX	q13.1	68,398,248	639,366	dup	FAM155B, EDA	27
chrX	p22.31	6,499,677	1,592,274	dup	HDHD1, STS, VCX, PNPLA4	15
chrX	q13.3	75,294,586	88,796	dup	CXorf26	14

ISSN: 1465-542X