Table 5.

Genetic association analysis using IM₃ (100 imputed data sets) under different data settings: (i) data of 13 villages where genotyping of the HBA2 gene was attempted in the majority of the individuals, (ii) data of the same 13 villages and an additional village where geno-typing was not attempted, and (iii) all data from the 24 villages

					Estimates (SE)
	Total sample	Missing	Mean association	Average no.
Analysis	size, n	genotypes, %	signal (range)a	of deletions	λ1	λ2
13 villagesb	4143	34.9	1.47 (0.42–3.22)	0.326 (0.01)	−0.226 (0.12)	0.181 (0.27)
13 villages and an additional villageb
North Pare
Kilomeni	4433	39.1	1.47 (0.19–3.68)	0.32 (0.01)	−0.22 (0.13)	0.19 (0.270)
Lambo	4405	38.7	1.59 (0.18–4.28)	0.32 (0.01)	−0.24 (0.13)	0.18 (0.27)
Ngulu	4499	40.0	1.62 (0.29–4.75)	0.33 (0.01)	−0.23 (0.13)	0.17 (0.28)
Kambi ya Simba	4356	38.0	1.65 (0.13–4.42)	0.33 (0.01)	−0.23 (0.13)	0.20 (0.26)
West Usambara 1
Emmao	4321	37.5	1.51 (0.20–3.98)	0.33 (0.01)	−0.23 (0.13)	0.17 (0.27)
Handei	4489	39.9	1.67 (0.38–4.87)	0.33 (0.01)	−0.23 (0.12)	0.21 (0.27)
Tewe	4463	39.5	1.88 (0.21–5.21)	0.33 (0.01)	−0.23 (0.13)	0.20 (0.27)
Mn'galo	4490	39.9	1.75 (0.27–4.56)	0.33 (0.01)	−0.22 (0.13)	0.21 (0.27)
West Usambara 2
Magamba	4351	38.0	1.56 (0.59–3.51)	0.32 (0.01)	−0.23 (0.12)	0.20 (0.27)
Ubiri	4297	37.2	1.77 (0.07–5.08)	0.33 (0.01)	−0.25 (0.13)	0.17 (0.27)
Kwemasimba	4374	38.3	1.83 (0.21–4.63)	0.34 (0.01)	−0.24 (0.13)	0.18 (0.27)
24 villagesc	7048	61.7	2.70 (0.10–6.75)	0.34 (0.03)	−0.23 (0.12)	0.18 (0.25)

^aAssociation signal is calculated by −log₁₀(p-value) using either the mean or the median of log-likelihood ratio statistic across all imputed data sets.

^bResults of model IM₃ were obtained from imputed data using chains of 25 iterations and random initial conditions.

^cResults of model IM₃ were obtained from imputed data using chains of 100 iterations and random initial conditions.