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Table 3 VEGAS2 gene-level analysis of the additive TTT and OS models. Genes with a BH-adjusted P-value < 0.1 are shown

From: The association of germline variants with chronic lymphocytic leukemia outcome suggests the implication of novel genes and pathways in clinical evolution

Gene

nSNPs

nSims

Test

P value

TopSNP

TopSNP.p value

BH-ajdusted p-value

VEGAS2 Analysis of TTT

AURKAIP1

2

1.00E+06

26.72

1.00E-06

rs2765035

2.28E-04

6.90E-03

NIFK

4

1.00E+06

36.22

1.00E-06

rs17016977

5.69E-06

6.90E-03

RIPK3

7

1.00E+06

22.32

2.00E-06

rs28379107

0.02

9.20E-03

SIK1

3

1.00E+06

31.07

9.00E-06

rs3746951

2.32E-05

0.03

ZCCHC7

2

1.00E+06

23.2

1.10E-05

rs3780333

3.84E-06

0.03

ABCA7

18

1.00E+06

88.04

2.30E-05

rs3752230

3.22E-04

0.05

PEX26

7

1.00E+06

83.49

2.70E-05

rs361807

4.31E-07

0.05

AARS

3

1.00E+06

17.21

4.10E-05

rs2070203

2.34E-03

0.06

NIFK-AS1

3

1.00E+06

24.72

4.50E-05

rs17016977

5.69E-06

0.06

TSPO

2

1.00E+06

24.36

4.60E-05

rs6971

7.18E-05

0.06

MARCH.10

2

1.00E+06

20.45

4.80E-05

rs72842201

6.13E-06

0.06

LOC574538

3

1.00E+06

24.15

7.20E-05

rs56204927

1.94E-04

0.08

SEC24D

10

1.00E+06

44.69

7.60E-05

rs115446044

1.09E-03

0.08

TTLL12

9

1.00E+06

54.06

9.90E-05

rs9463

3.11E-06

0.1

GALNT11

4

1.00E+06

15.18

1.07E-04

rs146169444

0.01

0.1

VEGAS2 Analysis of OS

CLUAP1

7

1.00E+06

57.76

1.00E-06

rs78851263

3.27E-04

6.17E-03

TTC32

5

1.00E+06

66.51

1.00E-06

rs2304588

7.36E-07

6.17E-03

DRD3

2

1.00E+06

21.54

4.00E-06

rs3732783

9.77E-06

0.02

RAD51AP2

7

1.00E+06

22.31

6.00E-06

rs62130401

0.02

0.02

RIPK3

8

1.00E+06

18.64

1.30E-05

rs3212251

0.01

0.03

EPYC

2

1.00E+06

17.78

2.00E-05

rs76171854

3.25E-04

0.03

TENM4

13

1.00E+06

75.05

2.10E-05

rs1790557

1.16E-05

0.03

GTPBP1

6

1.00E+06

17.81

2.30E-05

rs16999297

6.42E-03

0.03

GAMT

2

1.00E+06

17.56

2.80E-05

rs266809

8.65E-05

0.03

DCP1B

16

1.00E+06

61.9

3.00E-05

rs150660202

7.13E-03

0.03

MIR548D1

3

1.00E+06

17.35

3.30E-05

rs12141159

4.48E-04

0.03

MIR548AA1

3

1.00E+06

17.35

3.40E-05

rs12141159

4.48E-04

0.03

WDR35

14

1.00E+06

89.29

5.90E-05

rs2293671

1.43E-06

0.06

BNIPL

6

1.00E+06

23.11

7.40E-05

rs955955

2.91E-03

0.06

KARS

3

1.00E+06

15.43

1.05E-04

rs148298278

1.28E-04

0.09

ACO1

13

1.00E+06

57.84

1.26E-04

rs56127964

3.88E-06

0.1

PARP6

3

1.00E+06

21.16

1.33E-04

rs76774695

7.96E-06

0.1