Table 2.
CLL-Specific Genomic Segments of CNV, Associated with Time-to-Event Outcomes in Univariate or Multivariate Analyses
| 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) |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| GT0042 | 2 | p11.2-p11.1 | 87872343-91021213 | 265 | 7 | 89757456-89873958 | 0.0397 | 0.0810 | 0.48 | 0.2313 | 0.59 | 0.0113 | −18.17 | 0.0073 | −18.33 | IGK@ | Yes |
| LT0118 | 4 | p12-q12 | 48119281-52514330 | 131 | 46 | 49345777-49345777 | 0.0000 | 0.0467 | 1.46 | 0.2080 | 1.28 | 0.3826 | 0.31 | 0.9217 | 0.04 | DCUN1D4 | Yes |
| GT0081 | 4 | p15.1 | 31083440-34471356 | 504 | 17 | 33813772-34027766 | 0.0029 | 0.0139 | 0.48 | 0.0363 | 0.53 | 0.8769 | 0.08 | 0.9329 | 0.05 | Intergenic | Yes |
| LT0193 | 6 | p21.32 | 32158177-32608988 | 635 | 120 | 32574137-32574137 | 0.0054 | 0.0429 | 0.68 | 0.6149 | 0.91 | 0.3254 | −0.33 | 0.9168 | 0.04 | HLA,DRA, DRB1, and DRB5 | Yes |
| LT0221 | 6 | q27 | 169980638-170557777 | 138 | 13 | 170224848-170224848 | 0.0333 | 0.2640 | 1.45 | 0.1069 | 1.74 | 0.0310 | 1.09 | 0.0449 | 1.01 | LOC15449 and DLL1 | Yes |
| GT0195 | 7 | q21.11 | 82689044-83177270 | 151 | 12 | 83131205-83133610 | 0.0109 | 0.8467 | 1.07 | 0.5658 | 1.24 | 0.0492 | −17.08 | 0.0653 | −17.01 | SEMA3E | Yes |
| GT0202 | 7 | q31.1 | 110249344-111251527 | 267 | 10 | 110718711-110764580 | 0.0185 | 0.3858 | 0.72 | 0.9682 | 0.98 | 0.0272 | −17.10 | 0.0671 | −16.82 | IMMP2L and LRRN3 | 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 |
| GT0281 | 11 | q22.1 | 97861584-98426127 | 151 | 8 | 98132117-98212355 | 0.0316 | 0.2866 | 1.51 | 0.3624 | 1.43 | 0.0418 | −17.09 | 0.0401 | −17.19 | CNTN5 | Yes |
| LT0374 | 11 | q22.3-q23.2 | 107197896-113285988 | 1094 | 22 | 107520009-113107765 | 0.0007 | 0.0400 | 1.68 | 0.4967 | 1.29 | 0.5310 | −0.36 | 0.1561 | −0.78 | ATM | No |
| LT0477 | 17 | p13.2-p13.1 | 6164128-9233788 | 767 | 10 | 6164128-9233788 | 0.0185 | 0.5450 | 1.23 | 0.3525 | 0.70 | 0.0182 | 1.21 | 0.8683 | 0.12 | TP53 | No |
Segments that reflect the recurrent abnormalities del11q22 and del17p13 are underlined. 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.