Table 4 of Yip, Mol Vis 2011; 17:810-821.

Table 4. Pooled DNA analysis of tag SNPs in the COL11A1, COL18A1, FBN1, and PLOD1 genes.

        Estimated freq of 1st allele in DNA pools  
Candidate
gene
SNP*		 Alleles†
(1st/2nd)		 k correction factor
peak height ratio (1st/2nd)
Case
Control		 Diff
Case - Control)		 Nested ANOVA
p value
COL11A1 rs2061705 C/T 1.07 0.7361 0.7608 −0.0247 0.3690
  rs2615987 C/A 0.68 0.8228 0.8496 −0.0268 0.1317
  rs17127311
‡ G/A 0.77 0.1084 0.1409 −0.0325 0.0981
  rs12143740 C/T 1.01 0.1041 0.0929 0.0112 0.6521
  rs4908273 G/A 0.91 0.7256 0.7165 0.0091 0.6941
  rs11164630 G/A 1.02 0.4140 0.3929 0.0211 0.3243
  rs9659030 G/A 1.05 0.2926 0.3079 −0.0153 0.6075
COL18A1 rs11089001 C/T 1.07 0.5161 0.5292 −0.0131 0.4837
  rs2026885 G/A 1.09 0.6748 0.6798 −0.0050 0.8748
  rs1004133 G/A 1.56 0.7386 0.7453 −0.0067 0.8369
  rs2838907 C/G 1.14 0.6709 0.6721 −0.0012 0.9681
  rs2838913 G/A 0.29 0.9246 0.9516 −0.0270 0.1642
  rs2838916 G/T 0.97 0.5042 0.5038 0.0004 0.9864
  rs2838917 G/A 0.88 0.5840 0.5627 0.0213 0.4705
  rs2838920 C/T 1.21 0.6460 0.6468 −0.0008 0.5991
  rs2838922
‡ C/T 1.14 0.7680 0.7313 0.0367 0.0572
  rs2838923 G/A 0.83 0.4811 0.4706 0.0105 0.6356
  rs11911327
‡ C/T 1.09 0.7656 0.7971 −0.0315 0.0959
  rs8126757 G/A 0.92 0.5004 0.5158 −0.0154 0.4029
  rs11702782 G/A 0.95 0.8379 0.8275 0.0104 0.5183
  rs2026887 C/T 0.94 0.5781 0.5890 −0.0109 0.6956
  rs8129539 C/G 1.17 0.7152 0.6878 0.0274 0.2946
  rs8133622 G/A 1.02 0.3570 0.3572 −0.0002 0.9847
  rs7279077 T/A 1.02 0.2285 0.2334 −0.0049 0.8037
  rs2236454
‡ C/T 0.57 0.5775 0.6285 −0.0510 0.0629
  rs2236457
‡ C/T 1.12 0.7031 0.6776 0.0255 0.0779
  rs2230687 C/G 1.17 0.6553 0.6423 0.0130 0.4992
  rs2236475
‡ G/A 1.14 0.2955 0.3322 −0.0367 0.0852
  rs7279445 C/T 0.86 0.5650 0.5648 0.0002 0.9832
  rs3753019 C/T 1.09 0.6069 0.6164 −0.0095 0.7198
  rs2838951 G/C 1.17 0.4213 0.4260 −0.0047 0.7522
  rs7499 G/A 0.97 0.5045 0.4767 0.0278 0.4194
  rs1051296 G/T 1.14 0.5576 0.5573 0.0003 0.9858
FBN1 rs6493334 T/A 0.97 0.6390 0.6384 0.0006 0.9738
  rs6493333 G/A 1.09 0.7846 0.8116 −0.0270 0.1682
  rs6493331 G/T 0.97 0.7304 0.7260 0.0044 0.8532
  rs2247876 G/A 1.06 0.1589 0.1830 −0.0241 0.2860
  rs16961274 C/G 1.09 0.7850 0.7630 0.0220 0.4914
  rs12438332 C/G 1.14 0.8878 0.9112 −0.0234 0.2146
  rs1807301 C/T 1.11 0.3600 0.3805 −0.0205 0.2644
  rs16961207 G/T 1.15 0.7887 0.7972 −0.0085 0.6213
  rs12915677 G/A 1.11 0.6875 0.6756 0.0119 0.6227
  rs683282 G/A 1.06 0.6829 0.6902 −0.0073 0.7380
  rs16961118 G/A 0.89 0.8019 0.7978 0.0041 0.8580
  rs6493328 C/T 1.07 0.5318 0.5100 0.0218 0.3937
  rs17361868 G/A 0.99 0.7825 0.8030 −0.0205 0.1928
  rs11635140 G/A 1.13 0.7071 0.7037 0.0034 0.8172
  rs11070643 G/A 1.00 0.7054 0.6942 0.0112 0.3992
  rs3825963 C/T 1.10 0.7603 0.7988 −0.0385 0.1403
  rs10519174 C/T 0.94 0.6281 0.6329 −0.0048 0.8305
  rs1467953 C/A 1.33 0.6339 0.6361 −0.0022 0.7903
PLOD1 rs1208984 G/A 0.97 0.2559 0.2616 −0.0057 0.8053
  rs7529452 C/T 1.03 0.6258 0.5912 0.0346 0.4005
  rs7551175 G/A 1.14 0.7086 0.6950 0.0136 0.6240
  rs11585018 G/A 0.92 0.8047 0.7888 0.0159 0.5827
  rs2273286 G/A 0.99 0.1953 0.1947 0.0006 0.9778
  rs1130529 C/T 0.93 0.5770 0.5978 −0.0208 0.6025
  rs2273291 C/T 1.05 0.6965 0.7189 −0.0224 0.3443
  rs3818157 G/A 1.19 0.3911 0.3726 0.0185 0.4668
  rs3753579 G/A 1.06 0.4766 0.4494 0.0272 0.3591

*SNPs are arranged down the column in the order of 5′>3′ along the sense strand of the respective gene. †The 1st allele has a shorter elution while the 2nd allele has a longer elution time. The alleles are named with reference to the sense strand of the respective gene. ‡SNP that give significant results (p<0.10).

Yip, Mol Vis 2011; 17:810-821. http://www.molvis.org/molvis/v17/a92

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