Table 3.
Genomic Segments of Total CNVs That Were Independent Predictors of TTT
| ID | Chr | Band | Start-end | No. of SNPs | No. of Pat sharing MR | Start-end MR | P value for CLL vs HapMap | P value for TTT univ | HR TTT univ | P value for TTT multiv | HR TTT multiv | P value for OS univ | Log HR OS univ | P value for OS multiv | Log HR OS multiv | Potential key gene affected in or near MR | Structural variation in DGV (MR) |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| LT0069 | 2 | q37.1 | 232274785-232811993 | 191 | 12 | 232413576-232413900 | 0.0109 | 0.0691 | 1.87 | 0.0917 | 1.78 | 0.9761 | −0.02 | 0.9999 | 0.00 | COPS7B | Yes |
| LT0138 | 4 | q28.3 | 134301954-134519508 | 39 | 138 | 134352228-134352498 | 0.4121 | 0.0765 | 1.52 | 0.3805 | 1.25 | 0.9453 | −0.03 | 0.7228 | −0.15 | None | Yes |
| GT0117 | 4 | q34.3 | 179314101-180642935 | 481 | 5 | 180185537-180252886 | 0.0723 | 0.0971 | 2.38 | 0.0208 | 3.62 | 0.7178 | 0.39 | 0.2993 | 1.29 | None | Yes |
| GT0140 | 5 | q14.1 | 80707506-80931112 | 68 | 5 | 80759214-80849681 | 0.0723 | 0.0337 | 3.14 | 0.1987 | 1.93 | 0.1804 | 1.15 | 0.2857 | 0.93 | SSBP2 | Yes |
| LT0190 | 6 | p21.33 | 31353098-31408775 | 111 | 55 | 31400561-31400561 | 0.0083 | 0.0618 | 1.40 | 0.0869 | 1.37 | 0.9952 | 0.00 | 0.9799 | 0.01 | HLA-B | Yes |
| GT0159 | 6 | p21.32 | 32518405-32619844 | 113 | 12 | 32616865-32616865 | 0.9754 | 0.0339 | 2.19 | 0.3749 | 1.38 | 0.0738 | 0.97 | 0.0597 | 1.09 | HLA,DRA, DRB1, and DRB5 | Yes |
| LT0205 | 6 | q12 | 66565309-67421357 | 212 | 17 | 67079427-67104015 | 0.3564 | 0.0116 | 2.15 | 0.4902 | 1.24 | 0.4691 | 0.36 | 0.7703 | −0.14 | None | Yes |
| GT0182 | 6 | q27 | 167778489-168519816 | 296 | 5 | 168131062-168334983 | 0.8435 | 0.0293 | 3.28 | 0.0220 | 3.58 | 0.9838 | 0.02 | 0.8373 | 0.22 | KIF25 and FRMD1 | Yes |
| LT0253 | 7 | q35 | 143445383-143740335 | 49 | 7 | 143547020-143639837 | 0.1428 | 0.0156 | 3.04 | 0.0290 | 2.70 | 0.7718 | −0.28 | 0.8375 | −0.20 | CTAGE4 | Yes |
| LT0293 | 8 | q24.23 | 137747099-137955330 | 117 | 7 | 137897035-137900849 | 0.6978 | 0.0473 | 2.41 | 0.0099 | 3.33 | 0.1668 | 0.95 | 0.0493 | 1.45 | None | Yes |
| GT0267 | 11 | p15.4-p15.1 | 3513788-16565390 | 3597 | 9 | 16167919-16285585 | 0.0242 | 0.0375 | 2.25 | 0.0489 | 2.16 | 0.5502 | −0.55 | 0.7026 | −0.37 | SOX6 | Yes |
| LT0419 | 14 | q31.3 | 85454369-85743205 | 103 | 5 | 85454369-85743205 | 0.4802 | 0.0840 | 2.46 | 0.0648 | 2.67 | 0.9711 | 0.04 | 0.6324 | 0.53 | None | Yes |
| LT0503 | 18 | q22.1 | 61833162-61974746 | 48 | 12 | 61881775-61881930 | 0.6480 | 0.0005 | 3.58 | 0.0011 | 3.28 | 0.4746 | 0.46 | 0.2973 | 0.71 | None | Yes |
| GT0398 | 22 | q11.23 | 21820663-24259550 | 623 | 9 | 22717669-24259550 | 0.3653 | 0.0550 | 2.34 | 0.3668 | 1.48 | 0.7092 | 0.28 | 0.7672 | 0.23 | CABIN1 and ADORA2A | Yes |
P < 0.05 values are boldfaced.
Chr, chromosome; DGV, Database of Genomic Variants (http://projects.tcag.ca/variation, last accessed January 1, 2012); multiv, in multivariate analysis; Pat, patients; univ, in univariate analysis.