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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.