Table 1 Catalogue of copy number variations and LOH in BIN-67 cell line

2p12

rs12713994; rs6729700

31

80.1-80.2

97.1

-

Gain

1

CTNN2A*

none

3q13.32

rs9810432; rs2868975

19

116.8-116.9

107.3

-

Loss

0

n/a

4q22.1

rs2583985; rs1838227

30

90.7-91.0

267.3

-

Loss

2

SNCA*, MMRN1

n/a

4q22.1

rs10017262; rs6849036

20

91.8-91.9

116.1

-

Loss

1

FAM190A *

n/a

4q25

rs10516583; rs895763

69

113.0-113,8

75.7

-

Gain

8

C4orf32, AP1AR, TIFA, ALPK1, NEUROG2, C4orf21, LARP7, ANK2*

ALPK1, NEUROG2, LARP7

5p13.3-p13.2

rs6450864; rs10454863

545

31.8-36,2

4450.9

-

Gain

28

PDZD2, GOLPH3, MTMR12, ZRF, SUB1, NPR3, LOC340113, TARS, ADAMTS12, RXFP3, SLC45A2, AMACR, C1QTNF3, RAI14, TTC23L, RAD1, BRIX1, DNAJC21, AGXT2, PRLR, SPEF2, IL7R, CAPSL, UGT3A1, UGT3A2, LMBRD2, SKP2, NADKD1*

PDZD2, GOLPH3, ZRF, SUB1, PRLR, SKP2

16q23.1

rs6564596; rs4888943

133

78.8-79.3

462.7

-

Gain

1

WWOX*

none

20q11.22-q13.2

rs1998233; rs6021435

1 886

33.6-50.4

16 742.9

+

Loss

187

TRPC4AP*, EDEM2, PROCR, MMP24, EIF6, FAM83C, UQCC, GDF5, CEP250, C20orf173, ERGIC3, FER1L4, SPAG4, CPNE1, RBM12, NFS1, ROMO1, RBM39, PHF20, SCAND1, C20orf152, LOC647979, EPB41L1, C20orf4, DLGAP4, MYL9, TGIF2, TGIF2-C20ORF24, C20orf24, SLA2, NDRG3, DSN1, C20orf117, C20orf118, SAMHD1, RBL1, C20orf132, RPN2, GHRH, MANBAL, SRC, BLCAP, NNAT, LOC100505783, CTNNBL1, VSTM2L, TTI1, RPRD1B, TGM2, KIAA1755, BPI, LBP, LOC388796, SNHG11, RALGAPB, ADIG, ARHGAP40, SLC32A1, ACTR5, PPP1R16B, FAM83D, DHX35, LOC339568, MAFB, TOP1, PLCG1, ZHX3, LPIN3, EMILIN3, CHD6, PTPRT, SRSF6, L3MBTL1, SGK2, IFT52, MYBL2, GTSF1L, TOX2, JPH2, C20orf111, LOC100505783, GDAP1L1, FITM2, R3HDML, HNF4A, TTPAL, SERINC3, PKIG, ADA, LOC79015, WISP2, KCNK15, RIMS4, YWHAB, PABPC1L, TOMM34, STK4, KCNS1, WFDC5, WFDC12, PI3, SEMG1, SEMG2, SLPI, MATN4, RBPJL, SDC4, SYS1, SYS1-DBNDD2, TP53TG5, DBNDD2, PIGT, WFDC2, SPINT3, WFDC6, SPINLW1-WFDC6, SPINLW1, WFDC8, WFDC9, WFDC10A, WFDC11, WFDC10B, WFDC13, SPINT4, WFDC3, DNTTIP1, UBE2C, TNNC2, SNX21, ACOT8, ZSWIM3, ZSWIM1, C20orf165, NEURL2, CTSA, PLTP, PCIF1, ZNF335, MMP9, SLC12A5, NCOA5, CD40, CDH22, SLC35C2, ELMO2, MKRN7P, LOC100240726, ZNF334, C20orf123, SLC13A3, TP53RK, SLC2A10, EYA2, , ZMYND8, LOC100131496, NCOA3, SULF2, LOC284749, PREX1, ARFGEF2, CSE1L, STAU1, DDX27, ZNFX1, NCRNA00275, , KCNB1, PTGIS, B4GALT5, SLC9A8, SPATA2, RNF114, SNAI1, TMEM189-UBE2V1, UBE2V1, TMEM189, CEBPB, LOC284751, PTPN1, FAM65C, PARD6B, BCAS4, ADNP, DPM1, MOCS3, KCNG1, NFATC2, ATP9A

n/a

21q22.12

rs2212922 ; rs7280062

20

37.5-37.6

108.3

-

Gain

1

LOC100133286, LOC100506428, CBR3, DOPEY2*

none