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Fig. 3 | Genome Medicine

Fig. 3

From: Host genetic variation and its microbiome interactions within the Human Microbiome Project

Fig. 3

Correlation between high-level genetic variation and microbiome composition. a The first two components of the genetic principal component analysis are shown, based on common single nucleotide variants, overlaid by self-reported donor ethnicity. AA African-American. b Shown is how much variance in microbiome data on average can be explained by the genetic principal components, when compared to permutation on the same data. Values shown are Z-scores based on permutations, which were also used to calculate empirical p values. c Distribution of genetic principal component R2 values for different species and pathways in stool. Y-axis shows the variance explained, and the X-axis shows permutation-based empirical p values for each of those numbers. Only the names of species with false discovery rate (FDR) < 0.05 and pathways’ FDR < 0.01 are shown. The histogram below displays the distribution of empirical p values, and the Y-axis shows the number of species in a bin. Green bars under the pathway histogram show how the pathways that are associated with fermentation are ranked by R2

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