Table 2. Minimal overlapping regions in wild-type/PDGFRA-mutant gastrointestinal stromal tumors and the corresponding genes.
|
|
|
Differentially expressed genes (n=37) |
||||
|---|---|---|---|---|---|---|
| Loss (n=15) |
Previously identified genes |
>2.5 fold decrease |
P<0.0001 | |||
| 14q13.1 - q13.2 | · | · | · | |||
| 14q32.33 | HSP90, SIVA | · | · | |||
| 16p13.11 | · | · | · | |||
| 16q22.1 | · | · | THAP11, NUTF2, COG8 | |||
| 17q21.31 | STAT3, TOP2A | KRTAP1-3, KRTAP4-1 | CASC3 | |||
| 17q25.3 | GRB2 | · | GRB2, SLC26A11 | |||
| 1p36.33 - p11.2 | mTOR, JUN, NRAS, SDHB | CYP2J2, CRYZ, ECHDC2, HOOK1, PTGER3, DFFB, CDC14A, VCAM1, ICMT, HNRNPCL1 | DVL1, TARDBP, ICMT, NADK, CLIC4, ARTN, GPSM2 | |||
| 1q21.3 | SHC1 | LCE2D | ZNF687, LCE2D, SPRR3 | |||
| 1q42.13 | · | DUSP5P | ARF1, TRIM11 | |||
| 20p13 | · | SCRT2 | · | |||
| 19q13.31 | · | · | TEAD2 | |||
| 3q26.1 | SMARCA3 | SLITRK3, BCHE | · | |||
| 4q13.2 | · | · | · | |||
| 6p21.32 | · | · | · | |||
| 9q34.3 | · | · | ENTPD2 | |||
| Differentially expressed genes (n=16) | ||||||
| Gain (n=5) | Previously identified genes | >2.5 fold increase | P<0.0001 | |||
| 12p13.31 | · | NTF3, VWF | C3AR1, ACRBP | |||
| 16q12.2 | · | · | CHD9 | |||
| 22q11.23 | · | VPREB3, GSTT1 | · | |||
| 3q29 | · | ATP13A3, MUC4 | PAK2, LRRC15, MUC4, KIAA0226, ATP13A3, CPN2, ACAP2 | |||
| 8p11.22 | · | · | · | |||
Bold font indicates cancer-related genes according to the Ingenuity knowledge database.