Table 3.
Genomic imbalances in the zebrafish T-ALL model observed in multiple fish.
| BAC Clonea | LG Chromosome Assignment by FISH | Relative Position Along Chromosome | Initial Designation of BAC Clone (Marker/Oncogene/TSG)b | Current Gene Annotation (Nov. 2007) | No. of Samples with a Significant Genomic Imbalance (N = 8) | Percent of Samples with a Significant Genomic Imbalance | Gain/Loss | FISH Confirmed |
|---|---|---|---|---|---|---|---|---|
| zK242H09 | 1 | 7.5 | Oncogene | DENND4A | 6 | 75% | Gain | Yes |
| zC117N19 | 14 | 0.5 | Marker | PCDHA3 | 2 | 25% | Loss | No |
| PCDHAC2 | ||||||||
| PCDHGA5 | ||||||||
| PCDHGA11 | ||||||||
| zC159I08 | 14 | 4.5 | Oncogene | AMIGO2 | 2 | 25% | Loss | Yes |
| MXRA5 | ||||||||
| PEG10 | ||||||||
| PNMA1 | ||||||||
| RAB33A | ||||||||
| RNF4 | ||||||||
| SELT | ||||||||
| zK014B13 | 17 | 6.5 | Marker | ARHGEF10 | 7 | 88% | Gain | Yes |
| CLN8 | ||||||||
| DLGAP2 | ||||||||
| DLGAP4 | ||||||||
| PPIE | ||||||||
| zK014D24 | 18 | 8 | Marker | ARHGEF17 | 6 | 75% | Gain | Yes |
| RELL1 | ||||||||
| TNFRSF19L | ||||||||
| zK097O05 | 20 | 7 | Oncogene | MLL2 | 2 | 25% | Gain | NAc |
| PDC | ||||||||
| PLA2G4A | ||||||||
| PRG4 | ||||||||
| PTGS2 | ||||||||
| SCYL3 | ||||||||
| TPR | ||||||||
| zK221H15 | 20 | 7 | Marker | CAD | 2 | 25% | Gain | NAc |
| CPS1 | ||||||||
| DNAJC5 | ||||||||
| IFT172 | ||||||||
| RDHE2 | ||||||||
| TRIM54 | ||||||||
| zK002J07 | 22 | 0.5 | Marker | CENTB2 | 7 | 88% | Gain | Yes |
| HTR2B | ||||||||
| PIM3 | ||||||||
| PP1R2 | ||||||||
| PSMD1 | ||||||||
| ZBED1 | ||||||||
| zC009D01 | 22 | 9.5 | Marker | No hits | 7 | 88% | Gain | Yes |
a
zC denotes the CHORI-211 zebrafish BAC clone library and zK denotes the Danio Key zebrafish BAC clone library
b
Please see Table S1 for original gene annotation
c
NA = FISH confirmation was not completed for these clones