A: Clones with significant difference in frequency of copy number gain between cell lines and tumor tissue specimens | ||||
---|---|---|---|---|
Chromosomal region | Candidate genes | Frequency (%) | P-value | |
 |  | Cell lines | Tissue |  |
20q13.33 | ZGPAT, BTBD4, | 18/24 | 1/35 | 5.68551E-09 |
20q13.13 | COX6CP2 | 18/24 | 1/33 | 1.26370E-08 |
2q22.3 | Â | 16/24 | 0/34 | 2.20899E-08 |
20q13.31 | TFAP2C, PTMAP6 | 20/24 | 6/35 | 4.89015E-07 |
7p22.3 | FLJ20397, UNC84A, | 14/24 | 1/35 | 1.52990E-06 |
20q13.12 | MYBL2 | 14/24 | 1/35 | 1.52990E-06 |
20q13.12 | ADA, WISP2 | 14/24 | 2/35 | 7.97121E-06 |
20q11.21 | DNMT3B, MAPRE1 | 11/24 | 0/35 | 8.97575E-06 |
20q11.21-20q11.22 | SNTA1 | 11/24 | 0/35 | 8.97575E-06 |
8q24.3 | HSF1, DGAT1, SCRT1 | 17/24 | 5/35 | 1.02265E-05 |
20q13.33 | TPD52L2, DNAJC5 | 17/24 | 5/35 | 1.02265E-05 |
3q29 | LRCH3, IQCG, | 12/24 | 1/35 | 1.77298E-05 |
20p13 | DEFB32, TRIB3 | 12/24 | 1/35 | 1.77298E-05 |
20q13.33 | ARFGAP1, CHRNA4 | 19/24 | 8/35 | 2.00152E-05 |
5p14.1 | Â | 13/24 | 2/35 | 2.68521E-05 |
11q13.3-11q13.4 | PPFIA1, CTTN, SHANK2 | 13/24 | 2/35 | 2.68521E-05 |
20q11.21 | BCL2L1, TPX2, MYLK2 | 13/24 | 2/35 | 2.68521E-05 |
20q13.33 | KCNQ2, EEF1A2, PTK6, | 17/24 | 6/35 | 3.26970E-05 |
5p15.31 | Â | 15/24 | 4/35 | 3.72069E-05 |
5p15.2 | MARCH6 | 15/24 | 4/35 | 3.72069E-05 |
5p15.1 | BASP1, FTHL10 | 15/24 | 4/35 | 3.72069E-05 |
6q22.31 | Â | 16/24 | 4/31 | 3.94622E-05 |
8q24.21 | MYC, PVT1, | 22/24 | 14/35 | 6.40836E-05 |
7q11.23 | POR, TMPIT, DUSP24 | 9/24 | 0/35 | 8.30527E-05 |
14q22.2-14q22.3 | GALIG, LGALS3 DLG7 | 9/24 | 0/35 | 8.30527E-05 |
19q13.43 | ZNF544, ZNF8, HKR2 | 9/24 | 0/35 | 8.30527E-05 |
20p11.23 | ZNF339, RPL15P1 | 9/24 | 0/35 | 8.30527E-05 |
3q29 | TMEM44, FLJ11301 | 12/24 | 2/35 | 8.56953E-05 |
10p15.3 | GTPBP4, IDI2, IDI1 | 12/24 | 2/35 | 8.56953E-05 |
20p13 | CSNK2A1 | 12/24 | 2/35 | 8.56953E-05 |
20q13.2 | ZNF217 | 17/24 | 7/35 | 9.43882E-05 |
B: Clones with siginificant difference in frequecy of copy number loss between cell lines and tumor tissue specimens | ||||
Chromosomal region | Candidate genes | Frrequency (%) | P-value | |
 |  | Cell lines | Tissue |  |
Xp11.3 | UTX | 21/24 | 1/35 | 3.98705E-11 |
Xq27.1 | - | 16/24 | 0/35 | 1.52947E-08 |
Xq21.1 | - | 18/24 | 2/35 | 3.33574E-08 |
4p15.1 | - | 16/24 | 1/35 | 1.05951E-07 |
4p13 | - | 14/24 | 0/34 | 3.16890E-07 |
18q12.3 | RIT2 | 16/23 | 2/34 | 3.88478E-07 |
Xq26.2 | OR2AF1 | 15/24 | 1/35 | 4.14685E-07 |
Xq27.3 | HCP44 | 15/24 | 1/35 | 4.14685E-07 |
18q21.1 | MAPK4 | 18/24 | 4/35 | 7.03535E-07 |
Xq28 | F8, VBP1, RAB39B, CLIC2 PHF10P1 | 13/24 | 0/35 | 8.17519E-07 |
18q21.1 | KIAA0427 | 17/24 | 3/34 | 9.90978E-07 |
8p12 | WRN | 18/24 | 4/34 | 1.01721E-06 |
2q34 | SPAG16 | 13/24 | 0/34 | 1.10437E-06 |
Xq26.2 | GPC3 | 14/24 | 1/35 | 1.52990E-06 |
4p16.3 | FLJ35816 | 15/24 | 2/35 | 2.23384E-06 |
4p15.1 | - | 15/24 | 2/35 | 2.23384E-06 |
18q12.2 | - | 15/24 | 2/35 | 2.23384E-06 |
Xq28 | SLC14A2, SLC14A1 | 15/24 | 2/35 | 2.23384E-06 |
18q21.1 | KIAA0427 | 17/24 | 3/34 | 9.90978E-07 |
8p12 | WRN | 18/24 | 4/34 | 1.01721E-06 |
2q34 | SPAG16 | 13/24 | 0/34 | 1.10437E-06 |
Xq26.2 | GPC3 | 14/24 | 1/35 | 1.52990E-06 |
4p16.3 | FLJ35816 | 15/24 | 2/35 | 2.23384E-06 |
4p15.1 | - | 15/24 | 2/35 | 2.23384E-06 |
18q12.2 | - | 15/24 | 2/35 | 2.23384E-06 |
18q12.3 | SLC14A2, SLC14A1 | 15/24 | 2/35 | 2.23384E-06 |
4p15.1 | - | 17/24 | 4/34 | 4.02576E-06 |
18q21.32 | - | 17/24 | 4/34 | 4.02576E-06 |
Xq28 | CSAG2, MAGEA2B MAGEA12, CSAG1 | 14/23 | 2/35 | 4.27750E-06 |
4q13.1 | EPHA5 | 8/16 | 0/35 | 5.21729E-06 |
3p22.1 | NKTR, ZNF651, KBTBD5 | 13/24 | 1/35 | 5.34274E-06 |
4p16.3 | HD, | 13/24 | 1/35 | 5.34274E-06 |
4p13 | - | 13/24 | 1/35 | 5.34274E-06 |
4q22.1 | - | 13/24 | 1/35 | 5.34274E-06 |
5q14.3 | - | 13/24 | 1/35 | 5.34274E-06 |
18q12.1 | - | 13/24 | 1/35 | 5.34274E-06 |