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Supplementary Information
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FIGURE S1: First four principal components of PCA including populations from
Cameroon, Caribbean Islands, France, Raleigh, southeast US, and Winters reveal that
most variation explained is within the Cameroon population
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3
2
1
0
Percent variation explained
Percentage of variation explained by each PC
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20
40
60
80
100
120
PC #
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FIGURE S2. Percentage of variation explained over all principal components
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FIGURE S3: First and second principal components (eigenvectors) of PCA with the
Cameroon population removed, but including populations from Caribbean Islands
(CAR), France (FRA), Raleigh (RAL), southeast US (SEU), and Winters (WIN)
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FIGURE S4: First four principal components of PCA with the Cameroon population
removed, but including populations from Caribbean Islands, France, Raleigh, southeast
US, and Winters
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0.78
0.79
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0.77
0.75
0.76
CV error
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●
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2
3
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K (num of ancestral populations)
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FIGURE S5: Cross validation results for ADMIXTURE analysis to determine the optimal
number of ancestral populations
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FIGURE S6: ADMIXTURE X-chromosome analysis for number of groups K=2. Red
indicates African ancestry,
FIGURE S7: Expected proportion of African ancestry for each population by
chromosomal region
CHR 2
FRA
FRA
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WIN
RAL
SEUS
CAR
CAM
0.03479
0.04292
0.06273
0.07378
0.17891
0.02220
0.03786
0.04657
0.14145
0.02602
0.02985
0.11839
0.03815
0.13094
WIN
0.03903
RAL
0.03795
0.02431
SEUS
0.05114
0.05487
0.03238
CAR
0.07435
0.09362
0.05798
0.04345
CAM
0.14316
0.15647
0.11718
0.11065
0.11311
0.09201
TABLE S1: Average FST values between populations for chromosome 2 divided by
regions 2L (below diagonal) and 2R (above diagonal)
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CHR 3
FRA
FRA
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RAL
SEUS
CAR
CAM
0.06091
0.04787
0.05638
0.08436
0.15828
0.02519
0.05181
0.10992
0.19523
0.04005
0.08867
0.17283
0.05206
0.15105
WIN
0.03119
RAL
0.03769
0.02126
SEUS
0.05548
0.03855
0.02791
CAR
0.07135
0.05789
0.03810
0.04468
CAM
0.17481
0.16001
0.13335
0.14126
0.13220
0.11451
TABLE S2: Average FST values between populations for chromosome 3 divided by
regions 3L (below diagonal) and 3R (above diagonal)
FRA
FRA
WIN
RAL
SEUS
CAR
CAM
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WIN
0.00808221
0.00808332
0.00675504
0.00722308
0.0172637
FRA
WIN
RAL
SEUS
CAR
0.001230015 0.001146293 0.001754388 0.001699935
0.000797005 0.001671908
0.00156751
0.0071234
0.001537613 0.001396098
0.0068906
0.00664005
0.001741715
0.00703498
0.0067045
0.0048818
0.0166368
0.0164513
0.0158264
0.0157321
WIN
RAL
SEUS
CAR
CAM
0.003080155
0.003207963
0.00308286
0.003077658
0.00277879
FRA
WIN
RAL
SEUS
CAR
CAM
CAM
TABLE S3: Average DXY values between populations for autosomes (above diagonal)
and X chromosome (below diagonal)
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