Table 4.
Copy number deletion regions in HCB-514 cell line.
| Chromosome Region | Event | Cytoband | Cancer genes |
|---|---|---|---|
| chr1 | Deletion | p11.2 - q21.1 | |
| chr2 | Deletion | q33.1 - q37.3 | CREB1, IDH1, ATIC, FEV, PAX3, ACSL3 |
| chr3 | Deletion | p26.3 - p12.3 | SRGAP3, FANCD2, VHL, PPARG, RAF1, XPC, MLH1, MYD88, CTNNB1, SETD2, BAP1, PBRM1, FHIT, MITF, FOXP1 |
| chr3 | Deletion | q26.1 | |
| chr4 | Deletion | p16.3 - p16.1 | FGFR3, WHSC1 |
| chr4 | Deletion | p16.1 - q22.1 | SLC34A2, PHOX2B, FIP1L1, PDGFRA, CHIC2, KIT, KDR |
| chr4 | Homozygous deletion | q22.1 | |
| chr4 | Deletion | q22.1 - q26 | RAP1GDS1, TET2 |
| chr4 | Deletion | q26 - q35.2 | IL2, FBXW7 |
| chr5 | Deletion | p15.33 | |
| chr5 | Deletion | q11.1 - q13.2 | IL6ST, PIK3R1 |
| chr5 | Homozygous deletion | q13.2 | |
| chr5 | Deletion | q13.2 - q31.3 | APC |
| chr5 | Deletion | q31.3 - q35.3 | PDGFRB, CD74, ITK, EBF1, RANBP17, TLX3, NPM1, NSD1 |
| chr7 | Deletion | q11.21 - q22.1 | SBDS, ELN, HIP1, AKAP9, CDK6 |
| chr7 | Homozygous deletion | q22.1 | |
| chr7 | Deletion | q22.1 - q35 | MET, SMO, CREB3L2, KIAA1549, BRAF |
| chr7 | Deletion | q35 - q36.3 | EZH2, MLL3, SHH |
| chr9 | Homozygous deletion | p13.2 - p13.1 | |
| chr9 | Deletion | p13.1 - p12 | |
| chr9 | Homozygous deletion | p12 - p11.2 | |
| chr9 | Deletion | p11.2 - q13 | |
| chr9 | Deletion | q13 | |
| chr9 | Deletion | q21.11 | |
| chr9 | Deletion | q21.32 | |
| chr11 | Deletion | q22.3 - q25 | ATM, DDX10, POU2AF1, SDHD, PAFAH1B2, PCSK7, MLL, DDX6, CBL, ARHGEF12, FLI1 |
| chr13 | Deletion | q11 - q34 | CDX2, FLT3, BRCA2, LHFP, LCP1, RB1, ERCC5, FOXO1, GPC5, IRS2 |
| chr18 | Deletion | p11.32 - p11.31 | |
| chr18 | Deletion | p11.23 - p11.21 | |
| chr18 | Deletion | p11.21 | |
| chr19 | Deletion | q13.42 | |
| chr21 | Deletion | q11.2 - q22.12 | OLIG2, RUNX1 |
| chr21 | Deletion | q22.2 - q22.3 | TMPRSS2, U2AF1 |
| chrX | Deletion | q24 |