Table 2 rs17481869 (2q22.3) genotypes and risk associated with BCP-ALL, high-hyperdiploid, and ETV6-RUNX1 childhood BCP-ALL subtypes

From: Genome-wide association study identifies susceptibility loci for B-cell childhood acute lymphoblastic leukemia

 

RAF

Number

All BCP-ALL

Cases

Controls

Cases

Controls

OR

CI

P-value

 UK GWAS I

0.08

0.07

824

5200

1.18

(0.95–1.46)

1.37 × 10−1

 German GWAS

0.10

0.08

834

2024

1.25

(1.01–1.56)

4.33 × 10−2

 UK GWAS II

0.10

0.07

784

7385

1.52

(1.25–1.84)

2.53 × 10−5

 Combined

  

2442

14,609

1.32

(1.17–1.49)

5.36 × 10−6

      

Phet = 0.19

I2 = 39.3%

High-hyperdiploid

       

 UK GWAS I

0.06

0.07

289

5200

0.86

(0.61–1.22)

4.03 × 10−1

 German GWAS

0.08

0.08

176

2024

0.98

(0.64–1.48)

9.11 × 10−1

 UK GWAS II

0.10

0.07

251

7385

1.48

(1.06–2.08)

2.13 × 10−2

 Combined

  

716

14,609

1.10

(0.89–1.35)

0.38

      

Phet = 0.07

I2 = 62%

ETV6-RUNX1 -positive

       

 UK GWAS I

0.11

0.07

126

5200

2.01

(1.20–3.39)

8.52 × 10−3

 German GWAS

0.12

0.08

63

2024

1.72

(0.88–3.38)

1.14 × 10-1

 UK GWAS II

0.13

0.07

220

7385

2.34

(1.64–3.35)

2.90 × 10−6

 Combined

  

409

14,609

2.14

(1.64–2.80)

3.20 × 10−8

      

Phet = 0.70

I2 = 0%

  1. Note: P-values for each individual study were generated using SNPTEST v2.5.2 software. Combined P-values and estimates were obtained using a fixed-effects model using beta values and standard errors. RAF risk allele frequency, OR odds ratio, Phet P heterogeneity, I2 index to quantify dispersion of odds ratio, CI confidence interval
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