From: Comprehensive copy number profiles of breast cancer cell model genomes
Cell line | Locus | Start clone | End clone | Size (kb) | Â | Locus | Start clone | End clone | Size (kb) |
---|---|---|---|---|---|---|---|---|---|
MCF7 | Amplifications | Â | Deletions | ||||||
 | 1p13.3 | N0451I14 | N0228E23 | 1,290 |  | 3q13.31 | N0747H24 | N0362H11 | 700 |
 | 1p13.2 | N0099M15 | N0795O09 | 288 |  | 4q34.3-35.2 | N0442N05 | N0746B09 | 7,100 |
 | 1p13.2 | N0626F04 | N0517B05 | 1,330 |  | 6q25.2-27 | M2007C03 | M2258B24 | 14,400 |
 | 3p14.2-14.1 | N0669F02 | N0589G04 | 3,180 |  | 8p arm | p | p | p |
 | 8q21.2-q24.21 | N0133G02 | N0315E09 | 43,300 |  | 11p15.5-11.2 | N0412M16 | M2326E01 | 45,300 |
 | 15q21.1-21.3 | N0416B20 | N0664B09 | 4,930 |  | 11p11.2 | N0070A09 | M2326E01 | 1,940 |
 | 17q23.2-24.3 | N0716B04 | N0203A19 | 113,200 |  | 11q11-q12.1 | N0010E21 | F0627I09 | 4,300 |
Peak: | 17q23.2 | N0760B22 | N0433B24 | 4,900 | Â | 11q14.2-23.3 | N0282G16 | N0004N09 | 30,000 |
 | 17q25.1 | N0076G04 | N0552F03 | 766 |  | 11q23.3-25(tel) | N0196E01 | N0715D10 | 15,400 |
 | 20q12 | N0385G02 | N0476P15 | 1,790 |  | 13q14.2-34(tel) | N0155D15 | M2323L19 | 66,900 |
 | 20q13.12-20q13.33 (tel) | N0272C13 | N0476I15 | 17,500 |  |  |  |  |  |
Peaks: | 20q13.12-20q13.13 A | N0702E03 | N0730O20 | 1,790 | Â | Â | Â | Â | Â |
 | 20q13.13 B | N0711M06 | F0592G15 | 309 |  |  |  |  |  |
 | 20q13.2 C | N0020J08 | N0346B03 | 1,450 |  |  |  |  |  |
 | 20q13.31 D | N0044A06 | N0671P16 | 411 |  |  |  |  |  |
 | 21q22.13-22.3(tel) | N0094J12 | N0457P07 | 8,450 |  |  |  |  |  |
BT474 | Amplifications | Â | Amplifications | ||||||
 | 1q21.2-q25.1 |  |  |  |  | 15q11.2 -q12 | N0607H20 | N0208F21 | 5,030 |
Peaks: | 1q21.2-q21.3 A | N0035F14 | N0714N02 | 366 | Peaks: | 15q11.2 A | N0552D03 | M2200G17 | 949 |
 | 1q22-q23.1 B | N0647N20 | N0740J19 | 510 |  | 15q11.2 B | N0484P15 | N0710L06 | 624 |
 | 1q24.2 C | N0137J06 | N0616K15 | 540 |  | 17q12-21.2 | N0196P12 | N0278E15 | 4,090 |
 | 1q31.3 | N0662E13 | N0141E20 | 1,661 |  | 17q21.32-23.2 | N0771D19 | M2014K24 | 13,800 |
 | 1q32.1 | N0783D13 | N0617D19 | 936 | Peaks: | 17q21.32-q21.33 A | N0071G24 | N0607H13 | 2,500 |
 | 1q42.12-q42.13 | M2185P06 | M2016D17 | 500 |  | 17q22-23.2 B | N0515J20 | N0473G17 | 2,180 |
 | 1q43 | N0236L13 | N0614N14 | 449 |  | 17q23.2 C | N0399O18 | N0767P09 | 1,170 |
 | 1q44-q43 | N0440F10 | N0794A13 | 865 |  | 17q24.1-24.3 | N0583F02 | N0693H11 | 5,300 |
 | 1q44 | N0778E23 | N0071K05 | 1,720 | Peak: | 17q24.1 | N0583F02 | N0394K10 | 482 |
 | 4p16.1-15.33 | N0270I03 | N0652B07 | 1,210 |  | 19p13.2-13.12 | N0295M02 | N0441D06 | 6,310 |
 | 4q21.1 | N0598G02 | N0772N01 | 2,700 |  | 20p12.1 | N0134G22 | N0022E15 | 800 |
 | 9p13.3 | N0069E18 | N0795P12 | 2,060 |  | 20q11.22 | N0601G07 | N0552G16 | 1,300 |
 | 9q33.1-34.13 | M2248M11 | N0738I14 | 12,600 |  | 20q13.11-13.32 | N0809G24 | N0261P09 | 14,800 |
 | 11q13.1-13.5 | N0813P09 | N0360N22 | 19,800 |  | 20q13.33 | N0648D07 | N0694I10 | 305 |
Peaks: | 11q13.1 A | N0029K11 | N0804F01 | 704 | Â | 20q13.33-tel | N0305P22 | N0134L13 | 1,380 |
 | 11q13.4 B | N0093M11 | N0598G03 | 1,030 |  | Deletions | |||
 | 11q22.1-22.2 | N0795D03 | N0347H03 | 3,560 |  | 5q14.1-14.3 | N0129E04 | N0291O24 | 5,390 |
 | 14q11.2-q21.1 | N0597A11 | N0254B15 | 21,230 |  | 6q24.1 | N0709J21 | M22024J17 | 3,200 |
 | 14q31.3-32.12 | N0771O08 | N0325L17 | 3,080 |  | 20q11.22 | N0171G22 | N0774C15 | 670 |
 |  |  |  |  |  | 20p11.23-13.11 | N0712N14 | N0464F07 | 7,140 |
ZR 75 30 | Amplifications | Â | Amplifications | ||||||
 | 8q11.21 | N0569I08 | N0513O13 | 682 |  | 17q22-23.2 | N0349F01 | N0153J08 | 5,600 |
 | 8q13.3 | N0367C12 | N0634L17 | 538 | Peaks: | 17q23.2 A | N0159D12 | M2023J07 | 298 |
 | 8q21.2 | N0319A24 | N0317J10 | 1,350 |  | 17q23.2 B | N0381A05 | N0634F05 | 3,560 |
 | 8q21.3 | N0565H20 | N0102D03 | 264 |  | 17q23.3-24.1 | N0614F05 | N0712A10 | 481 |
 | 8q22.1 | N0381I07 | N0103P22 | 729 |  | Deletions | |||
 | 8q22.2-24.3 | N0281D17 | N0620H01 | 45,600 |  | 1p36.33-35.3 | N0206L10 | N0758C04 | 26,700 |
Peaks: | 8q23.1 A | N0078J05 | N0357L07 | 907 | Â | 1p35.2-35.1 | N0629A12 | N0068H10 | 775 |
 | 8q24.12 B | N0760H22 | N0088J18 | 1,440 |  | 1p34.3 | N0452M14 | N0020P17 | 1,510 |
 | 8q24.22 C | N0100J23 | N0422I20 | 440 |  | 1p21.2-13.3 | N0293L15 | N0813H10 | 10,800 |
 | 8q24.3 D | N0662P06 | F0530P15 | 2,740 |  | 4q21.1 | N0184F15 | N0184J11 | 151 |
 | 17q11.1-11.2 | N0260A09 | N0147N18 | 3,050 |  | 11q13.5-25(tel) | N0149B15 | M2270L17 | 57,600 |
 | 17q12 | N0600K04 | N0560P04 | 980 |  | 17q11.2-12 | N0082D14 | N0104J23 | 6,020 |
 | 17q12 | N0722D15 | N0062P03 | 1,360 |  | 17q21.1-21.32 | N0278E15 | N0046I22 | 7,700 |
 | 17q12-21.1 | N0689B15 | N0032H06 | 490 |  | 17q23.33-22 | N0368A16 | N0379H09 | 994 |
 | 17q21.32-21.33 | N0771D19 | M2190C10 | 3,910 |  | 17q22 | N0466D20 | N0515J20 | 881 |
 |  |  |  |  |  | 21q11.2-q22.11 | N0615H23 | N0694N16 | 16,300 |
UACC 893 | Amplifications | Â | Deletions | ||||||
 | 7p21.1 | N0116D07 | N0746H13 | 733 |  | 11p15.1 | N0118A14 | N0614L12 | 995 |
 | 11q13.3-q14.3 | M2011L13 | N0613M07 | 24,700 |  | 16p12.1 | N0104F06 | N0674B07 | 1,380 |
 | 11q22.1 | N0743I15 | N0659E10 | 619 |  | 17p arm | p | p | p |
 | 17q12-21.2 | N0600J16 | N0686E05 | 1,490 |  |  |  |  |  |
 | 17q21.33-24.2 | N0095M07 | N0068K09 | 17,700 |  |  |  |  |  |
 | 17q25.1 | N0076G04 | N0449J21 | 999 |  |  |  |  |  |
SKBR3 | Amplifications | Â | Amplifications | ||||||
 | 3p22.2 | N0091E04 | N0325M12 | 432 |  | 17q12-21.2 | N0062P03 | N0606M07 | 3,390 |
 | 3q25.1 | N0739J07 | N0118L18 | 678 |  | 17q25.3 | N0305C04 | N0781F24 | 1,550 |
 | 3q22.3-q23 | N0657M13 | N0718H02 | 2,000 |  | 20p arm | p | p | p |
 | 3q26.2-q26.31 | N0190I05 | N0590E04 | 3,300 |  | 20q11.22-11.23 | N0454F11 | N0254N13 | 4,510 |
 | 7q31.1-q32.3 | M2023N18 | N0019B03 | 17,800 |  | 20q12-13.32 | N0434N22 | N0290D09 | 16,200 |
 | 8q13.3-21.13 | N0746L20 | N0125J17 | 10,600 |  | Deletions | |||
 | 8q21.2-21.3 | N0509F16 | N0561A10 | 5,950 |  | 8q21.3-22.1 | N0230C03 | N0804A07 | 6,040 |
Peaks: | 8q21.2 A | N0694L21 | N0606L16 | 309 | Â | 8q22.3-23.1 | N0739L19 | N0025P11 | 4,920 |
 | 8q21.3 B | N0129P07 | N0196C06 | 559 |  | 8q24.22 | N0015L05 | N1147M08 | 1,570 |
 | 8q21.3 C | N0627A06 | N0529J09 | 499 |  | 8q24.23-24.3 | N0467B24 | N0613F12 | 3,810 |
 | 8q23.2-24.21 | N0114O08 | N0294P07 | 17,100 |  | 10q22.3-25.2 | N0635P19 | N0257E05 | 30,900 |
Peaks: | 8q23.3 A | N0058O03 | N0531C21 | 746 | Â | 12q23.3-24.11 | N0061L24 | M2155D19 | 1,380 |
 | 8q23.3 B | N0164M09 | M2118B16 | 365 |  | 12q24.21-24.31 | N0412G23 | N0138I16 | 5,360 |
 | 8q24.12 C | N0389M07 | N0047A23 | 821 |  | 17q11.2-12 | N0634A23 | N0607B02 | 6,460 |
 | 8q24.21 D | N0288B17 | N0294P07 | 716 |  | 17q21.2-23.2 | N0400F19 | N0767P09 | 18,100 |
 | 10q21.1-22.3 | N0195P24 | N0506E07 | 25,500 |  | 18q12.2-21.2 | N0645I23 | N0664P08 | 20,400 |
 | 14q31.3-32.12 | N0046B20 | N0386D20 | 7,020 |  | 19p13.11 | N0715L15 | N0723M22 | 4,710 |
 | 17q11.1-11.2 | N0458L21 | N0193M11 | 3,170 |  |  |  |  |  |
MDA MB 231 | Amplifications | Â | Deletions | ||||||
 | 6p21.31-21.2 | N0479F12 | N0450J18 | 3,510 |  | 8q24.13 | N0346M14 | N0391A17 | 1,020 |
 | 6p21.2-21.1 | N0259H15 | N0769C16 | 3,290 |  | 9p24.2-22.2 | N0654D08 | N0460F23 | 14,500 |
 | 7q35 | N0703N05 | N0340G20 | 670 | Peak: | 9p22.3-22.2 | N0141K07 | N0460F23 | 2,000 |
 |  |  |  |  |  | 9p21.3-21.2 | N0066P03 | N0486D12 | 5,210 |
 |  |  |  |  | Peak: | 9p21.3 | N0315I14 | N0730N17 | 280 |
T47D | Amplifications | Â | Deletions | ||||||
 | 3q26.2-29(tel) | N0415B12 | M2110L16 | 28,700 |  | 12p13.32-12.3 | N0312A03 | N0056F05 | 11,700 |
 | 11q23.3-25(tel) | N0081I13 | M2013A02 | 15,200 |  | 18p11.32-11.32 | N0619C21 | N0193E15 | 349 |
 | Deletions |  | 18q21.1 | N0699O23 | N0093N16 | 311 | |||
 | 8p23.1 | N0485I05 | M2185F10 | 1,000 |  | Xq | q | q | q |
 | 8p23.1 | N0367E11 | N0801I21 | 704 |  |  |  |  |  |