Polarity gene alterations in pure invasive micropapillary carcinomas of the breast

Breast Cancer Research

Table 1 Frequencies of regions of gains, losses and amplifications in invasive micropapillary carcinomas and in oestrogen receptor–positive and grade-matched invasive ductal carcinomas of no special type ^a

SNP start	SNP end	Chr	Cytoband	IMPCs (%)	IDC-NSTs (%)	Genes of interest
Common regions
Gains
36948617	146292734	8	p11.23-q24.3	60	45
Losses
113565	35436036	8	p23.3-p12	63	63
46534977	90163275	16	q11.2-q24.3	55^b	54
6689	18896297	17	p13.3-p11.2	46	43^b
16055171	51219006	22	q11.1-q13.33	52	40
Specific regions
Gains
197811282	249198692	1	q31.3-q44	23	48
52579874	67308196	17	q22-q24.3	47	25
33435161	62648208	20	q13.12-q13.33	17	44
Losses
101380020	125365648	6	q16.3-q22.31	45^b	20
705598	13611533	18	p11.32-p11.21	15	42
28175177	35313501	18	q12.1-q12.2	24	40
Amplifications
37097563	38618768	8	p11.23-p11.22	13	26	FGFR1, PPAPDC1B, WHSC1L1
94967717	97023919	8	q22.1	21	5	RAD54B, CCNE2, TP53INP1
115849871	138121678	8	q23.3-q24.23	21	14	MYC
69073647	70229171	11	q13.3-q25	7	22	CCND1, ORAOV1, FGF19, FGF4, FGF3
37298761	38225021	17	q12-q21.1	22	24	STARD3, ERBB2, GRB7
57159990	62354992	17	q22-q23.3	22	7	BCAS3, TBX2, TLK2, TANC2, PPM1D
50695849	52586281	20	q13.2	15	26	ZNF217, BCAS1

^aChr, Chromosome; IDC-NST: invasive carcinoma of no special type; IMPC, Invasive micropapillary carcinoma; SNP, Single-nucleotide polymorphism. Recurrent gains, losses or amplifications observed in more than 20% of cases after exclusion of genomic variants according to the Database of Genomic Variants (http://dgv.tcag.ca/dgv/app/home). SNP start and SNP end refer to SNP positions corresponding to the boundaries of gains, losses or amplifications. Genomic positions are provided according to human genome 19 (hg19) references in base pairs. ^bExistence of a homozygous deletion is observed in one case among IMPCs and IDC-NSTs studied. The lower part of the table lists the specific regions of gains, losses and amplifications that were statistically different between IMPCs and IDC-NSTs with P < 0.05 by Fisher’s exact test.

ISSN: 1465-542X