Table 2 Recurrently altered regions in 48 breast cancer specimens
RARs | Chr | Map position | Size | Cytoband | P- value | Freq | Freq | Freq | Event* | Cancer-related genes |
|---|---|---|---|---|---|---|---|---|---|---|
(Mp) | (Mp) | (Total) | (S-I) | (S-II) | ||||||
RAR-G1 | 1 | 143,83-144,30 | 0.47 | q21.1 | 0.04 | 48% | 36% | 51% | Earlier | TXNIP |
RAR-G2 | 1 | 148,12-150,25 | 2.13 | q21.2-q21.3 | 0.01 | 50% | 36% | 54% | Earlier | MCL1, CTSK, ARNT, SETDB1, SELENBP1, S100A10 |
RAR-G3 | 1 | 150,75-155,11 | 4.36 | q21.3-q23.1 | 0.04 | 48% | 36% | 51% | Earlier | CREB3L4, TPM3, HAX1, IL6R, PYGO2, SHC1, CKS1B, NES, ADAM15, EFNA1, MUC1, YY1AP1, ARHGEF2, RAB25, CCT3, CRABP2, HDGF, PRCC |
RAR-G4 | 1 | 158,48-159,47 | 0.99 | q23.2-q23.3 | 0.04 | 48% | 45% | 49% | Earlier | F11R, USF1 |
RAR-G5 | 1 | 226,10-226,90 | 0.80 | q24.13 | 0.04 | 48% | 45% | 49% | Earlier | WNT9A, WNT3A |
RAR-G6 | 6 | 64,05-64,75 | 0.70 | q12 | 0.00 | 38% | 45% | 35% | Earlier | - |
RAR-G7 | 8 | 123,47-124,74 | 1.27 | q24.13 | 0.02 | 50% | 36% | 54% | Earlier | FAM83A |
RAR-G8 | 8 | 126,23-127,30 | 1.07 | q24.13-q24.21 | 0.02 | 50% | 36% | 54% | Earlier | - |
RAR-G9 | 8 | 140,69-143,86 | 3.17 | q24.3 | 0.02 | 50% | 36% | 54% | Earlier | PTK2, PTP4A3, PSCA, LYNX1 |
RAR-G10 | 8 | 144,34-146,27 | 1.93 | q24.3 | 0.02 | 50% | 36% | 54% | Earlier | SCRIB, HSF1, SLCA4 |
RAR-G11 | 16 | 0-3,22 | 3.22 | p13.3 | 0.05 | 38% | 27% | 41% | UC | MPG, AXIN1, RHOT2, STUB1, MSLN, CACNA1H, IGFALS, GFER, TSC2, PDPK1, MMP25 |
RAR-G12 | 16 | 28,32-31,19 | 2.87 | p11.2 | 0.05 | 40% | 36% | 41% | Earlier | NUPR1, SULT1A2, SULT1A1, MVP, MAPK3, FUS, PYCARD |
RAR-G13 | 17 | 34,97-35,30 | 0.33 | q12 | 0.03 | 38% | 36% | 38% | Earlier | PPP1R1B, PNMT, PERLD1, ERBB2, GRB7 |
RAR-G14 | 17 | 70,76-71,21 | 0.45 | q25.1 | 0.03 | 38% | 9% | 46% | Later | GRB2 |
RAR-G15 | 17 | 76,90-78,77 | 1.87 | q25.3 | 0.03 | 38% | 9% | 46% | Later | HGS, SIRT7, RAC3, FASN, CSNK1D |
RAR-G16 | 20 | 43,84-44,15 | 0.31 | q13.12 | 0.00 | 33% | 18% | 38% | UC | UBE2C, MMP9 |
RAR-G17 | 20 | 60,17-61,61 | 1.44 | q13.33 | 0.04 | 31% | 18% | 35% | UC | ADRM1, LAMA5, NTSR1, BIRC7, EEF1A2 |
RAR-G18 | 20 | 61,67-62,44 | 0.77 | q13.33 | 0.04 | 31% | 27% | 32% | UC* | TNFRSF6B |
RAR-L1 | 8 | 8,14-14,07 | 5.93 | p23.1-p22 | 0.00 | 50% | 36% | 54% | Earlier | CLDN23, PINX1, GATA4, NEIL2, FDFT1, CTSB, DLC1 |
RAR-L2 | 8 | 15,66-17,12 | 1.44 | p22 | 0.02 | 48% | 36% | 51% | Earlier | TUSC3, MSR1, FGF20 |
RAR-L3 | 8 | 24,01-26,72 | 2.71 | p21.2 | 0.02 | 48% | 36% | 51% | Earlier | ADAM28, GNRH1, PPP2R2A, ADRA1A |
RAR-L4 | 16 | 75,79-80,74 | 4.95 | q23.1-q23.3 | 0.00 | 33% | 27% | 35% | UC | WWOX, DYNLRB2, PLCG2, HSD17B2 |
RAR-L5 | 17 | 10,54-14,10 | 3.56 | p13.1-p12 | 0.04 | 44% | 27% | 49% | UC | MAP2K4, ELAC2 |