Table 2 Most frequently reported chromosomal gains and losses present in HNSCC-derived cell lines
Chro | Region | Size (Mb) | Frequency | Known proto-oncogenes | Cell line with minimal region of change |
|---|---|---|---|---|---|
Chromosomal gains | |||||
1p | 1p32.1-p21.1 | 47,25 | 2/5 | - | SCC40 |
3q | 3q13.2-qter | 84,9 | 4/5 | BCL6, EIF4A2, EVI1, GMPS, LPP, MDS1, MLF1, PI3K3CA, RPN1, TFRC, ZNF9 | SCC2 |
5p | 5pter-p12 | 45 | 3/5 | LIFR | SCC38 |
6q | 6q16.3-q23.3 | 38,82 | 1/5 | FOXOA3, GOPC, ROS1, STL | SCC40 |
7p | 7pter-p14.3 | 32 | 3/5 | ETV1, HOXA9, HOXA11, HOXA13, HNRPA2B1, JAZF1, PMS2 | SCC29 |
7q | 7q21.13-q31.1 | 22,87 | 1/5 | AKAP9, CDK6 | SCC2 |
8q | 8q21.1-q24.22 | 64,6 | 5/5 | COX6C, EXT1, MYC, NBS1 | SCC29 |
9p | 9p21.2-p13.2 | 12,28 | 2/5 | PAX5, FANCG | SCC29 |
9q | 9q21.33-q34.11 | 43 | 4/5 | FANCC, NR4A3, OMD, PTCH1, SYK, TAL2, XPA | SCC29 |
11q | 11q12.2-q12.3 | 1,9 | 4/5 | - | SCC42B |
11q13.2-q22.2 | 33,1 | 4/5 | PRAD1, NUMA1, PICAM, MAML2, BIRC3 | SCC40 | |
11q23.3 | 0,20 | 3/5 | SCC40 | ||
DDX6 | |||||
14q | 14q23.1-q24.2 | 13,23 | 1/5 | GPHN, RAD51L1 | SCC2 |
14q31.1 | 0,72 | 3/5 | TSHR | SCC2 | |
18p | 18p11.31-p11.21 | 13.37 | 4/5 | - | SCC40 |
19p | 19p13.2-p13.13 | 1,64 | 1/5 | LYL1 | SCC42B |
20q | 20q11.21-q11.23 | 4,86 | 3/5 | - | SCC42B |
Chromosomal losses | |||||
1p | 1p13.2-p12 | 7,35 | 2/5 | NRAS, TRIM33 | SCC29, SCC40 |
3p | 3p23-p22.3 | 2,5 | 4/5 | MLH1 | SCC2 |
5q | 5q11.1-q12.3 | 13,11 | 2/5 | - | SCC29, 38 |
8p | 8pter-q11.21 | 47,1 | 2/5 | PCM1, FGFR1, WRN, WHSC1L1 | SCC40 |
9p | 9p21.3 | 2,61 | 3/3 | CDKN2A, CDKN2B, MLLT3 | SCC29 |
10p | 10pter-p11.21 | 37,35 | 2/5 | COPEB, MLLT10, SH3BP1 | SCC2, SCC40 |
11q | 11q22.3-qter | 15,29 | 3/5 | ATM, CBL, DDX10, PAFAH1B2, POU2AF1, SDHD, ZNF145, FLI1, PRO1073 | SCC42B |
18q | 18q21.1-qter | 29,97 | 3/5 | BCL2, FVT1, SMAD4, MALT1 | SCC40 |
22q | 22q11.21 | 1,03 | 2/5 | BCR, CLTCL1, PNUTL1, SMARCB1 | SCC29 |
22q12.1-q12.2 | 1,96 | 2/5 | SCC40 |