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Table 2 8 SNPs associated with paclitaxel response in both LCLs and lung cancer patients

From: Genetic association with overall survival of taxane-treated lung cancer patients - a genome-wide association study in human lymphoblastoid cell lines followed by a clinical association study

SNP Lung cancer patients LCL Chr Position Gene symbol Location Location relative to gene (bp)
  NSCLC SCLC MAF Paclitaxel Docetaxel MAF      
  P value HR P value HR   P value R value P value R value       
rs7519667 --- --- 0.028 0.543 0.178 2.71E-05 −0.261 --- --- 0.308 1 239,951,930 WDR64 intron −1,292
rs10193067 --- --- 0.039 0.372 0.043 3.61E-05 0.254 --- --- 0.085 2 52,543,917 ASB3 flanking_3UTR −1,206,705
rs2700868 0.028 1.193 --- --- 0.157 6.56E-05 0.248 --- --- 0.260 3 183,922,829 ATP11B upstream 71,156
rs2662411 --- --- 0.039 0.666 0.417 6.36E-05 −0.246 --- --- 0.333 5 10,186,704 FAM173B downstream 92,734
rs1106697 0.016 1.237 0.007 1.875 0.106 7.00E-05 0.245 --- --- 0.092 7 155,365,705 SHH upstream 67,977
rs1778335 --- --- 0.019 1.602 0.308 6.04E-05 0.248 --- --- 0.211 10 22,972,154 PIP4K2A intron 0
rs11629576 --- --- 0.011 0.637 0.447 6.-0577E 0.245 --- --- 0.466 15 76,294,371 ACSBG1 intron −6,872
rs11079337 0.007 1.168 --- --- 0.366 5.10E-04 −0.215 7.85E-04 −0.208 0.338 17 53,517,495 DYNLL2 intron −1,452
rs17079623 0.016 1.234 --- --- 0.122 6.94E-04 0.210 3.32E-04 0.222 0.190 18 64,544,220 TXNDC10 flanking_5UTR −10,887
rs7260598 0.020 0.821 --- --- 0.162 6.27E-06 −0.277 2.46E-05 −0.259 0.165 19 24,014,626 ZNF254 upstream 47,190
rs17304569 0.019 0.818 --- --- 0.161 7.76E-05 −0.243 6.74E-05 −0.245 0.163 19 24,032,745 ZNF254 upstream 29,071
  1. 11 of 153 SNPs were associated with SCLC or NSCLC overall survival with p-value < 0.05. The hazard ratio (HR) > 1 means that patients carrying the minor allele had poor survival. In other words, the same SNP would be expected to be associated with higher IC50 values in our LCLs, i.e., r-value > 0. After comparing the association direction for clinical overall survival with that of the LCL results, 8 out of 11 SNPs showed concordant association directions between the two phenotypes. The 3 SNPs showed opposite association directions were rs10193067, rs11629576 and rs11079337.