Table S1: Classification error rates of NAT2PRED in the 56 worldwide samples collected from the literature.
Population
(No. of individuals)
Sampling
location
No. of
screened
Haplotyping
b
method
Reference
a
variants
Classification error rate
c
for two phenotypes
Classification error rate
d
for three phenotypes
Sub-Saharan Africa (617)
Tswana (101)
South Africa
7
Loktionov et al. 20021
Akele Bantus (50)
Gabon
7
Patin et al. 2006
Bakola Pygmies (40)
Cameroon
7
M
9.8%
16.1%
2
CB
14.0%
14.0%
2
CB
2.5%
30.0%
2
CB
0%
13.3%
CB
0%
11.7%
M+CB
0%
18.2%
M+CB
12.0%
22.0%
CB
9.3%
18.6%
Patin et al. 2006
Baka Pygmies (30)
Cameroon
7
Patin et al. 2006
Yoruba (60)
Nigeria
7
HapMap data
3
4
Dendi (11)
Nigeria
7
Luca et al. 2008
Dogons (50)
Mali
7
Deloménie et al. 1996
Mandenka (97)
Senegal
7
5
6
Sabbagh et al. 2008
2
Somali (24)
Somalia
7
Patin et al. 2006
CB
4.2%
4.2%
Sudanese (127)
Sudan
7
Al-Yahyaee et al. 20077
CB
5.5%
6.3%
4
4
Amhara (15)
Ethiopia
7
Luca et al. 2008
M+CB
0%
0%
Oromo (12)
Ethiopia
7
Luca et al. 2008
M+CB
0%
0%
Morocco
7
Patin et al. 20062
CB
0%
0%
4
M+CB
0%
5.4%
M
0.8%
1.9%
Europe and North Africa (4,391)
Moroccans (44)
Egyptians (37)
Egypt
6
Luca et al. 2008
Spanish (1,312)
Spain
7
Agundez et al. 2008
8
2
Sardinians (49)
Sardinia
7
Patin et al. 2006
CB
0%
0%
Italians (37)
Italy
6
Luca et al. 20084
M+CB
0%
2.7%
Greeks (40)
Greece
6
Luca et al. 20084
2.5%
M+CB
0%
9
Turks (303)
Turkey
7
Aynacioglu et al. 1997
M+CB
0%
0%
French (60)
France
7
Deloménie et al. 19965
M+CB
0%
3.3%
UK Caucasians (112)
United Kingdom
7
Loktionov et al. 20021
M
0%
0%
US Caucasians (387)
United States
7
Deitz et al. 200010
CB
0.3%
0.5%
US Caucasians (60)
United States
7
HapMap data
3
CB
0%
0%
2
Swedes (50)
Sweden
7
Patin et al. 2006
CB
0%
0%
Saami (48)
Finland
7
Patin et al. 20062
CB
0%
0%
M+CB
0.1%
0.5%
CB
0.9%
1.8%
M+CB
0%
0%
M+CB
0%
0%
11
Germans (844)
Germany
7
Cascorbi et al. 1995
Germans (223)
Germany
6
Schnakenberg et al. 200012
Czechs (27)
Czech Republic
6
Polish (248)
Poland
7
4
Luca et al. 2008
13
Mrozikiewicz et al. 1996
Table S1 (Continued)
Population
(No. of individuals)
Ashkenazi Jews (40)
Romanians (140)
Sampling
location
Romania
No. of
screened
Reference
a
variants
7
6
Patin et al. 20062
14
Rabstein et al. 2006
4
Haplotyping
Classification error rate
Classification error rate
methodb
for two phenotypesc
for three phenotypesd
CB
0%
0%
CB
0%
0%
Mordvins (14)
Mordovia
6
Luca et al. 2008
M+CB
0%
7.1%
Russians (290)
Russia
7
Gaikovitch et al. 2003
M+CB
0%
0%
4
Perm Russians (12)
Russia
6
Luca et al. 2008
M+CB
0%
8.3%
Khanty&Mansi (14)
Russia
6
Luca et al. 20084
M+CB
0%
0%
Turkmen (50)
Uzbekistan
7
Patin et al. 20062
CB
0%
0%
Kyrgyz (290)
Kyrgyzstan
6
Rabstein et al. 2006
CB
0%
0%
Central/South Asia (757)
14
2
Gujarati (50)
India
7
Patin et al. 2006
CB
0%
0%
Dravidians (166)
India
7
Anitha and Banerjee 200315
M
1.2%
10.2%
Marathi (201)
India
7
Singh et al. 2009
CB
1.0%
5.0%
China
7
Guo et al. 200417
CB
0%
1.8%
16
East Asia (2,346)
Han Chinese (112)
3
Han Chinese (45)
China
7
HapMap data
Han Chinese (212)
China
7
Song et al. 2009
Chinese (44)
China
7
Patin et al. 20062
Japanese (144)
Japan
7
18
19
Tanaka et al. 2002
20
CB
0%
0%
M+CB
0%
1.4%
CB
0%
2.3%
CB
0%
0.7%
Japanese (172)
Japan
6
Deguchi et al. 2005
CB
0%
0%
Japanese (44)
Japan
7
HapMap data3
CB
0%
0%
Koreans (288)
Korea
7
Lee et al. 200321
CB
0%
2.1%
Koreans (1,000)
Korea
6
22
M
0.2%
2.6%
2
Lee et al. 2002
Thai (44)
Thailand
7
Patin et al. 2006
CB
0%
0%
Indonesians (212)
Indonesia
7
Yuliwulandari et al. 200723
CE
0%
0%
Yakuts (16)
Siberia
6
Luca et al. 2008
4
M+CB
0%
0%
4
M+CB
0%
7.7%
Chukchee (13)
Siberia
6
Luca et al. 2008
Panama
6
Jorge-Nebert et al. 200224
CC
0%
2.2%
24
0%
2.9%
0%
1.5%
America (378)
Embera (136)
Ngawbe (105)
Panama
6
Jorge-Nebert et al. 2002
CC
Nicaraguans (137)
Nicaragua
7
Martinez et al. 199825
M
a
All population samples were genotyped for the seven common SNPs of the NAT2 gene (191G>A, 282C>T, 341T>C, 481C>T, 590G>A,
803A>G, and 857G>A), except some non-African samples where the SNP 191G>A was omitted since this is monomorphic in non-African
populations.
b
In each sample, NAT2 haplotypes were reconstructed using either molecular techniques (M), computational algorithms (C), or a combination of
both approaches (M+C; some studies indeed limited the application of molecular haplotyping to particular cases as those where an alternative
linkage pattern of mutations would have led to a change in phenotype). CB, CE and CC refer to the computational method used (when
applicable): the Bayesian algorithm implemented in PHASE26, the EM algorithm27 implemented in Haploview28, and the Clark’s method29
based on maximum parsimony, respectively.
c
Classification error rate of NAT2PRED when two phenotypic classes were considered: slow and other acetylators (intermediate and rapid
acetylators pooled together).
d
Classification error rate of NAT2PRED when three phenotypic classes were considered: slow, intermediate and rapid acetylators.
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