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. Author manuscript; available in PMC: 2012 Dec 15.
Published in final edited form as: Cancer Res. 2011 Oct 28;71(24):7568–7575. doi: 10.1158/0008-5472.CAN-11-0013

Table 2.

The NPL scores and exact p-values for US glioma pedigrees after the removal of all SNPs with r2 value > 0.004 and minor allele frequency below 0.05.

chr physical location SNP max NPL NPL exact p-value left physical location right physical location
1 158,235,632 rs6676862 1.6120 0.0556 157,007,286 158,871,097
2 1,657,741 rs7560004 1.9369 0.0283 1,443,268 4,151,604
3 178,984,865 rs6764952 1.9355 0.0284 175,719,120 180,045,647
4 7,375,903 rs4689705 1.1218 0.1320 6,691,863 7,852,481
5 103,137,679 rs320654 1.8552 0.0338 89,093,506 124,487,446
6 22,393,991 rs1205961 2.0998 0.0195 22,382,745 23,359,338
7 100,639,893 rs1468358 1.4495 0.0755 100,151,356 101,310,585
8 72,212,959 rs1481812 1.1769 0.1209 72,179,731 78,848,596
9 1,901,291 rs10811102 1.6935 0.0473 1,381,887 2,049,341
10 37,456,382 rs1878249 1.2281 0.1111 1,050,218 33,053,017
11 122,434,697 rs11551598 1.7056 0.0461 122,356,773 123,153,543
12 24,344,720 rs565934 2.0733 0.0208 2,152,566 25,405,864
13 105,045,125 rs10508158 1.5536 0.0622 101,097,159 114,108,121
14 19,946,093 rs1760897 1.5150 0.0669 19,536,664 93,349,018
15 41,144,698 rs12050604 1.5787 0.0593 37,598,478 41,154,373
16 86,488,782 rs8058389 1.4061 0.0817 84,489,852 87,500,055
17 42,504,408 rs4074249 3.3913 0.0005 33,196,340 45,510,424
18 75,238,190 rs1110784 2.4501 0.0082 73,651,628 76,085,595
19 2,561,822 rs8104096 1.0822 0.1404 5,495,085 54,286,819
20 2,051,264 rs6075668 1.3404 0.0918 16,749 3,398,635
21 45,595,912 rs2838891 0.5032 0.3048 42,200,186 46,852,308
22 26,003,211 rs134806 1.1607 0.1240 15,873,708 33,555,460

NOTE: chr, chromosome; physical location, the physical location at which maximum NPL score was observed; SNP, rs number of the SNP at which maximum NPL score was observed; max NPL, maximum NPL score obtained; NPL exact p-value, the exact p-value associated with maximum NPL score from Allegro; left physical location and right physical location, boundaries based on 1-LOD drop (approximating 95% confidence interval for the location of peak.