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Table 1 99% confidence intervals (CIs) from various proceduresa

From: A likelihood-based procedure for obtaining confidence intervals of disease loci with general pedigree data

   

GLRT/Asymptotic

 

Pop.

Modelsb (P A , f aa , f Aa , f AA )

LOD/Integrated

With MA

Without MA

3-LOD

FR

FR1

11.36*

5.29*

5.71*

 
 

(0.05, 0.031, 0.045, 0.810)

(42.10, 63.00)

(43.46, 48.75)

(43.45, 49.16)

Null

 

FR2

18.85*

11 modelsc

5.70*

 
 

(0.08, 0.030, 0.033, 0.523)

(40.75, 63.55)

 

(43.13, 48.83)

Null

 

NARAC1

18.28*

 

14.84*

 
 

(0.10, 0.032, 0.276, 0.920)

(41.55, 70.87)

 

(41.41, 62.59)

Null

 

NARAC2

19.33*

 

12.36*

 
 

(0.15, 0.020, 0.216, 0.695)

(40.75, 63.55)

 

(41.36, 61.41)

Null

NARAC

NARAC1

12.78

12.50*

13.10*

24.16*

 

(0.10, 0.032, 0.276, 0.920)

(35.76, 57.96)

(36.21, 52.56)

(35.87, 52.76)

(34.02, 58.18)

 

NARAC2

20.23*

38 modelsc

11.97*

22.82*

 

(0.15, 0.020, 0.216, 0.695)

(34.98, 60.62)

 

(36.39, 52.36)

(34.44, 57.26)

 

FR1

  

5.46

12.88

 

(0.05, 0.031, 0.045, 0.810)

Null

 

(35.20, 40.66)

(28.90, 41.78)

 

FR2

  

5.85

19.04

 

(0.08, 0.030, 0.033, 0.523)

Null

 

(35.01, 40.86)

(29.50, 52.17)

UK

UK1

50.56*

27.65*

27.47*

40.18*

 

(0.12, 0.014, 0.093, 0.504)

(34.20, 87.58)

(43.06, 72.51)

(41.60, 69.07)

(38.68, 78.86)

 

UK2

19.47

15 modelsc

26.27*

38.54*

 

(0.09, 0.025, 0.065, 0.830)

(58.83, 78.58)

 

(44.59, 74.04)

(40.58, 79.12)

  1. aFor each model and method, we give the length of the confidence set in cM, with a "*" to signify those that contain the HLA*DRB1 locus. We also provide the convex set of the confidence set below the length. For the GLRT/asymptotic procedure with MA, the number of models accounted for is also provided, below the convex set. The 3-LOD intervals are treated as approximate 99% CI [2].
  2. bModels {FR1, FR2}, {NARAC1, NARAC2} and {UK1, UK2} are the models consistent with IBD estimates for the FR, NARAC, and UK data, respectively. A is the disease allele and a the normal allele.
  3. cModels for GLRT/MA are inferred from the IBD estimates at the trait locus and their perturbations. They included the models explained in footnote b for individual analysis.
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