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Table 3 Family-based association analysis between SLC11A1 and VL

From: No evidence for association between SLC11A1and visceral leishmaniasis in India

(A) Additive model

Common Designation

Allele

Allele frequency

# Fam

S

E(S)

Var(S)

Z

P

GT n

2

0.15

68

60

70.38

28.4

-1.947

0.052

 

3

0.85

68

176

165.62

28.4

1.947

0.052

274C/T

1

0.88

43

104

99.65

16.3

1.076

0.282

 

2

0.12

43

36

40.35

16.3

-1.076

0.282

469 + 14G/C

1

0.11

20

17

21.50

9.7

-1.445

0.148

 

2

0.89

20

61

56.50

9.7

1.445

0.148

823 C/T

1

0.92

46

127

121.97

20

1.127

0.260

 

2

0.08

46

41

46.03

20

-1.127

0.260

1465-85G/A

1

0.31

92

117

119.63

42.9

-0.402

0.688

 

2

0.69

92

229

226.37

42.9

0.402

0.688

1729 + 55del4 (TGTG)

1

0.05

19

18

21.50

9.57

-1.131

0.258

 

2

0.95

19

54

50.50

9.57

1.131

0.258

1729 + 263del4 (CAAA)

1

0.74

88

216

203.33

41.2

1.974

0.048

 

2

0.26

88

104

116.67

41.2

-1.974

0.048

(B) Genotype-wise model

Common Designation

Genotype

Genotype frequency

# Fam

S

E(S)

Var(S)

Z

P

GT n

2\2

0.025

9

8

6.69

2.9

0.759

0.447

 

2\3

0.250

68

44

57.00

25.7

-2.565

0.010

 

3\3

0.725

65

66

54.31

24.1

2.382

0.017

1729 + 263del4 (CAAA)

1\1

0.566

75

69

63.57

27.9

1.027

0.304

 

1\2

0.347

87

78

76.19

33.9

0.311

0.755

 

2\2

0.087

26

13

20.24

9.64

-2.332

0.019

  1. FBAT analysis under (A) additive and (B) genotype-wise models of inheritance for associations between SLC11A1 polymorphisms and the primary family-based sample of VL from Bihar State, India. # Fam = number of families informative for the FBAT analysis; S and E(S) represent the observed and expected transmissions for that allele, Var(S) is the variance. A positive Z score indicates association with disease; a negative Z score indicates the non-associated or protective allele or genotype. Bold indicates significant associations at nominal P ≤ 0.05. The corrected P-value required to achieve significance taking account of multiple but not independent markers is P ≤ 0.017. Results are shown for the 7 polymorphisms that were genotyped in the primary family-based sample. All passed HWE (P-value cut-off 0.05/7 = 0.07 for 7 markers genotyped) in unaffected family founders.
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BMC Medical Genetics

ISSN: 1471-2350

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