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. 2009 Oct 23;5(10):e1000695. doi: 10.1371/journal.pgen.1000695

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This is an open-access article distributed under the terms of the Creative Commons Public Domain declaration which stipulates that, once placed in the public domain, this work may be freely reproduced, distributed, transmitted, modified, built upon, or otherwise used by anyone for any lawful purpose.

This is an open-access article distributed under the terms of the Creative Commons Public Domain declaration, which stipulates that, once placed in the public domain, this work may be freely reproduced, distributed, transmitted, modified, built upon, or otherwise used by anyone for any lawful purpose.

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We simulated our maximum-likelihood Out of Africa demographic model with a distribution of selective effects previously inferred for nonsynonymous polymorphism [49]. (A) To enable direct comparison with the neutral AFS (Figure 2C), the scaled mutation rate was set identically, as is the color scale. As expected, selection dramatically reduces the amount of segregating polymorphism. (B) Shown are the proportions of variation found in various frequency classes. As expected, nonsynonymous variants typically have lower frequency. They also less likely to be shared between populations. Data error bars indicate 95% bootstrap confidence intervals.

Inline graphic — We simulated our maximum-likelihood Out of Africa demographic model with a distribution of selective effects previously inferred for nonsynonymous polymorphism [49]. (A) To enable direct comparison with the neutral AFS (Figure 2C), the scaled mutation rate was set identically, as is the color scale. As expected, selection dramatically reduces the amount of segregating polymorphism. (B) Shown are the proportions of variation found in various frequency classes. As expected, nonsynonymous variants typically have lower frequency. They also less likely to be shared between populations. Data error bars indicate 95% bootstrap confidence intervals.