Table 6.
Genes in the “Regulation of Apoptosis” pathway and contained within sub-regions of LOH* associated with tumor stage.**
| CNA Frequency |
STAGE |
|||||
|---|---|---|---|---|---|---|
| Cytoband | GENE | LOH† | Gain | OR | 95% CI | P |
| 1p34 | PRDX1 | 4(1) | 0 | 6.77 | 0.61-75.42 | 0.120 |
| 1p13 | SORT1, ALX3 | 4(1) | 0 | -- | -- | -- |
| 2p22 | SOS1 | 5(2) | 1 | -- | -- | -- |
| 3q21 | KALRN, MBD4 | 4(1) | 2 | -- | -- | -- |
| 5q11 | IL31RA, MAP3K1 | 10(5) | 0 | 5.39 | 1.16-24.94 | 0.031 |
| 5q13 | TAF9, NAIP | 11(3) | 0 | 7.46 | 1.59-35.09 | 0.011 |
| 5q13 | F2R | 10(3) | 0 | 8.41 | 1.59-44.54 | 0.012 |
| 5q14 | JMY, RASGRF2 | 9(2) | 0 | 5.61 | 1.11-28.26 | 0.037 |
| 5q31 | IL4 | 4(1) | 0 | -- | -- | -- |
| 5q31 | PPP2CA | 5(2) | 0 | 11.76 | 1.09-127.21 | 0.042 |
| 8p23 | CLN8 | 21(2) | 0 | 5.36 | 1.62-17.73 | 0.006 |
| 8p23 | CTSB | 26(6) | 0 | 4.94 | 1.47-16.57 | 0.010 |
| 8p22 | DLC1 | 28(6) | 0 | 4.67 | 1.44-15.10 | 0.010 |
| 8p21 | PPP3CC | 30(7) | 0 | 4.72 | 1.44-15.42 | 0.010 |
| 8p21 | TNFRSF10B, TNFRSF10D, TNFRSF10A | 30(5) | 0 | 4.83 | 1.46-15.98 | 0.010 |
| 8p21 | NKX2-6, NEFL, GNRH1, BNIP3L | 29(5) | 0 | 5.09 | 1.56-16.63 | 0.007 |
| 8p21 | TRIM35 | 27(6) | 1 | 4.82 | 1.46-15.90 | 0.010 |
| 8p21 | CLU | 28(6) | 1 | 3.99 | 1.25-12.78 | 0.020 |
| 8p12 | BAG4 | 18(5) | 5 | 4.75 | 1.35-16.67 | 0.015 |
| 8p11 | ADAM9 | 18(4) | 4 | 4.21 | 1.24-14.35 | 0.021 |
| 8p11 | IDO1 | 21(7) | 2 | 5.32 | 1.62-17.48 | 0.006 |
| 8p11 | SFRP1 | 20(7) | 2 | 4.16 | 1.29-13.37 | 0.017 |
| 8p11 | IKBKB, POLB | 17(5) | 2 | 3.51 | 1.05-11.70 | 0.041 |
| 12p13 | CD27, ING4 | 6(3) | 1 | 1.95 | 0.33-11.68 | 0.464 |
| 13q12 | HMGB1 | 4(2) | 0 | 6.88 | 0.59-80.32 | 0.124 |
| 13q13 | BRCA2 | 4(2) | 0 | 6.87 | 0.59-80.15 | 0.124 |
| 13q22-q31 | EDNRB, POU4F1 | 6(3) | 0 | 2.00 | 0.31-12.81 | 0.465 |
| 13q33 | ERCC5 | 5(2) | 0 | 4.99 | 0.65-38.26 | 0.122 |
| 16q23 | BCAR1, CFDP1 | 11(2) | 0 | 4.20 | 1.01-17.57 | 0.049 |
| 16q23 | WWOX | 11(3) | 0 | 4.30 | 1.02-18.18 | 0.047 |
| 16q23 | CDH13 | 15(4) | 0 | 4.05 | 1.06-15.50 | 0.041 |
| 17p13 | ALOX15B | 10(1) | 0 | 2.06 | 0.50-8.60 | 0.319 |
*
A total of 109 sub-regions with four or more tumors with LOH were tested for association within the “regulation of apoptosis” pathway.
**
Adjusted for age and race. Bolded results indicate p-values < 0.05.
†
LOH: the total number of tumors with LOH for each sub-region is listed before the parentheses, and the number of those tumors with copy neutral LOH are listed in within the parentheses.