Table 1

Recurrent amplicons in breast tumors with examples of some candidate oncogenes

Tumors

Chr.

Proximal flanking clone

Start (bp)

Distal flanking clone

End (bp)

Size (Mb)

Candidate Genes


S0257; S1508

1

RP11-235B24

50120611

CTD-2010C4

64641284

14.5

JUN

S0021; S0065; S0127; S0132; S1534; S1539

8

RP11-210F15

36452678

RP11-262I23

39744917

3.3

BAG1; FGFR1; TACC1

S0013; S0257; S1598

8

RP11-128G18

127638988

RP11-227F7

131013284

3.4

MYC; WISP1

S0132; S0394; S1524

11

CTD-2115C17

32421376

RP11-18B9

40252688

7.8

TRAF6

S0050; S0065; S0081; S0132; S0252; S0303; S1534; S1539; S1598

11

CTD-2080I19

68483419

RP11-98G24

76964746

8.5

CCND1; FGF4; EMS1; PAK1

S0184; S1508

12

12pter

0

RP11-272L6

5221281

5.2

CCND2; FGF6; DYRK4

S0051; S0052; S0122; S1522

12

RP11-18B8

63882712

RP11-92P22

74052886

10.2

MDM2; DYRK2; YEATS4; HELB;

S0021; S0043; S0052; S0059; S0257; S0394; S1511; S1522; S1526; S1539

17

RP11-58O8

34147697

RP11-87N6

38680670

4.5

STARD3; ERBB2; GRB7; TOP2A; MMP28

S0043; S0104; S0394

17

RP11-110H20

47546526

RP11-481C4

49705574

2.2

IMP-1; ITGA3

S0001; S0021; S0043; S0104; S1508; S1511

17

RP5-1073F15

58499308

CTB-244K7

64939230

6.4

BRIP1; GH1; GH2; MAP3K3

S0127; S0257; S0269

18

RP11-7E5

10817140

RP11-10G8

17272427

6.5

PTPN2

S0021; S0043; S0050; S0051; S0055; S0059; S0122; S1522; S1545; S1598

20

RP11-169A6

44424925

RMC20P179

62702798

18.3

CYP24; ZNF217; STK6


Fridlyand et al. BMC Cancer 2006 6:96   doi:10.1186/1471-2407-6-96

Open Data