Table 2. Genes present in homozygously deleted regions in MMt cell lines.
| Recurrent homozygous HD genes | Non-recurrent HD genes | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
|
|
|
||||||||||
| Chromosome | No. of cell lines | Chromosome | No. of cell lines | Chromosome | Cell line | No. of cell lines | |||||
|
|
|
|
|
|
|
|
|||||
| Gene | Location | HD | Allelic loss | Gene | Location | HD | Allelic loss | Gene | Location | With HD | With allelic loss |
| CDKN2A/p14ARF | 9p21.3 | 17 | 0 | IFNA7 | 9p21.3 | 6 | 8 | RERE | 1p36.23 | H2869 | 11 |
| CDKN2A/p16INK4A | 9p21.3 | 16 | 1 | IFNA10 | 9p21.3 | 6 | 8 | UBR4 | 1p36.13 | H28 | 9 |
| CDKN2B | 9p21.3 | 16 | 1 | IFNA16 | 9p21.3 | 6 | 8 | AGBL4 | 1p33 | H2461 | 4 |
| CDKN2B-AS | 9p21.3 | 16 | 1 | IFNA17 | 9p21.3 | 6 | 8 | RFWD2 | 1q25.2 | H2052 | 5 |
| UBA52P6 | 9p21.3 | 16 | 1 | IFNA14 | 9p21.3 | 6 | 8 | SCARNA3 | 1q25.1 | H2052 | 4 |
| C9orf53 | 9p21.3 | 16 | 1 | C9orf11/EQTN | 9p21.2 | 6 | 8 | PTPN14 | 1q41 | H2591 | 1 |
| MTAP | 9p21.3 | 14 | 2 | MOBKL2B | 9p21.2 | 6 | 8 | CABC1, CDC42BPA | 1q42.13 | H2731 | 1 |
| IFNA13 | 9p21.3 | 10 | 5 | C9orf35/MOB3B | 9p21.2 | 6 | 8 | OR2T10 | 1q44 | H28 | 3 |
| IFNA2 | 9p21.3 | 10 | 5 | IFNK | 9p21.2 | 6 | 8 | C2orf50 | 2p25.1 | H2373 | 1 |
| IFNP11 | 9p21.3 | 10 | 5 | C9orf72 | 9p21.2 | 6 | 8 | PQLC3 | 2p25.1 | H2373 | 3 |
| IFNP12 | 9p21.3 | 10 | 5 | KIAA1797 | 9p21.3 | 5 | 9 | ROCK2 | 2p25.1 | H2373 | 2 |
| IFNA8 | 9p21.3 | 10 | 5 | PTPLAD2 | 9p21.3 | 5 | 9 | LRRC3B, NEK10 | 3p24.1 | H290 | 6 |
| IFNWP2 | 9p21.3 | 10 | 5 | IFNB1 | 9p21.3 | 5 | 9 | CTNNB1, ULK4 | 3p22.1 | H28 | 10 |
| IFNA1 | 9p21.3 | 10 | 5 | IFNW1 | 9p21.3 | 5 | 9 | WDR51A | 3p21.2 | H2595 | 9 |
| IFNWP19 | 9p21.3 | 10 | 5 | MIR491 | 9p21.3 | 4 | 10 | BAP1, PHF7, SEMA3G, TNNC1 | 3p21.1 | H2722 | 9 |
| IFNE | 9p21.3 | 10 | 5 | NF2 | 22q12.2 | 4 | 9 | UGT2B17 | 4q13.2 | H290 | 10 |
| MIR31 | 9p21.3 | 10 | 5 | GSTT1 | 22q11.23 | 4 | 6 | UGT2B29P | 4q13.2 | H290 | 11 |
| DMRTA1 | 9p21.3 | 9 | 6 | MIR876 | 9p21.1 | 3 | 11 | UGT2B28 | 4q13.2 | H2373 | 10 |
| ELAVL2 | 9p21.3 | 9 | 6 | MIR873 | 9p21.1 | 3 | 10 | HLA-DRB5, HLA-DRB6 | 6p21.32 | H2373 | 14 |
| C9orf134/IZUMO3 | 9p21.3 | 8 | 7 | ADAM5P | 8p11.22 | 3 | 6 | CUX1 | 7q22.1 | H2691 | 1 |
| TUSC1 | 9p21.2 | 8 | 7 | ADAM3A | 8p11.22 | 3 | 2 | CSMD3 | 8q23.3 | H2461 | 5 |
| IFNWP15 | 9p21.3 | 6 | 8 | CCSER1/FAM190A | 4q22.1 | 2 | 10 | MIR2053 | 8q23.3 | H2461 | 6 |
| IFNWP9 | 9p21.3 | 6 | 8 | MLLT3 | 9p21.3 | 2 | 10 | PTPRD | 9p24.1 | H2691 | 11 |
| IFNWP18 | 9p21.3 | 6 | 8 | LATS2 | 13q12.11 | 2 | 9 | KRT18P36, RPS26P2 | 9p21.1 | H2595 | 12 |
| IFNWP5 | 9p21.3 | 6 | 8 | RPL29 | 3p21.2 | 2 | 8 | C9orf30, TMEFF1 | 9q31.1 | H2818 | 1 |
| IFNA22P | 9p21.3 | 6 | 8 | DUSP7 | 3p21.2 | 2 | 8 | SAPS3 | 11q13.2 | H2369 | 0 |
| KLHL9 | 9p21.3 | 8 | 7 | CNTN5 | 11q22.1 | H2596 | 3 | ||||
| IFNA6 | 9p21.3 | 8 | 7 | KLRC3, KLRC2 | 12p13.2 | H2373 | 4 | ||||
| IFNA5 | 9p21.3 | 8 | 6 | PLBD1, GUCY2C | 12p13.1-12p12.3 | H290 | 5 | ||||
| IFNP20 | 9p21.3 | 8 | 6 | GPC6 | 13q31.3 | H2461 | 6 | ||||
| IFT74 | 9p21.2 | 7 | 9 | ACOT6 | 14q24.3 | H2818 | 6 | ||||
| LRRC19 | 9p21.2 | 7 | 9 | NRXN3 | 14q31.1 | H2369 | 10 | ||||
| TEK | 9p21.2 | 7 | 9 | IGHVII-40-1, IGHV3-41 | 14q32.33 | H2052 | 10 | ||||
| NCRNA00032/LINC00032 | 9p21.2 | 7 | 9 | STK11 | 19p13.3 | H2369 | 6 | ||||
| LINGO2 | 9p21.2 | 7 | 8 | ZNF573, WDR87, SIPA1L3 | 19q13.1 | H2369 | 3 | ||||
| C9orf82/CAAP1 | 9p21.2 | 7 | 7 | MACROD2 | 20p12.1 | H2691 | 4 | ||||
| PLAA | 9p21.2 | 7 | 7 | NCRNA00186 | 20p12.1 | H2691 | 6 | ||||
| RBFOX1/A2BP1 | 16p13.3 | 7 | 4 | NIPSNAP1 | 22q12.2 | H2591 | 11 | ||||
| IFNA21 | 9p21.3 | 6 | 8 | C22orf30, DEPDC5 | 22q12 | H2369 | 12 | ||||
| IFNA4 | 9p21.3 | 6 | 8 | APOBEC3B, APOBEC3C, APOBEC3D | 22q13.1 | H2596 | 11 | ||||