Supplemental figure – The observation that the number of significantly overlapping genes is bounded is only mildly affected by the choice of thresholds. Two plots presenting the same analysis as in Fig. 3a, where only significantly overlapping genes (SOGs) are considered, but with different thresholds for the definition of what is considered significant: 100 nt (A) and 50 nt (B). Only the X-axis is in log scale. Filtered out 3 outlying families (Nimaviridae, Phycodnaviridae and Iridoviridae with 461/472 of 532, 200/225 of 505 and 70/75 of 186 SOGs, respectively), leaving 90 shown families. Spearman rank correlation: ρ = 0.16, p-value = 0.13 (A) and ρ = 0.33, p-value = 0.0015 (B). (PNG 264 kb
<p><b>Copyright information:</b></p><p>Taken from "A statistical analysis of the three-fold evolutio...
Figure S1. The expression profile of RNAi across tissue. The normalized expression plotted across ti...
Figure S13. Correlation between gene turnover and effective population size. A. Gene turnover, T, wa...
Showing the crrelations between non-synonymous substitutions and gene lengths. In these plots, each ...
<p>For 28 nidoviruses representing species diversity, absolute sizes of 3′ORFs (A), ORF1a (B), and O...
Figure S1. Correspondence between Ne estimated from universally distributed genes and from the compl...
Figure S7. Correlation between genome size, pan-genome size, and effective population sizes as compu...
Figure S1. Breakpoint identification accuracy as compared to gene synteny. Considered are adjacent p...
Figure S8. Correlation between genome size and Ne for each lifestyle category. Genome size for a giv...
(1)<p>gene overlaps described previously (see reference <a href="http://www.ploscompbiol.org/article...
Ranking performance at increasing effect size for the main methods. The effect size (fold change) in...
Figure S2. The heat-map p-value of the difference between pairwise posterior distributions. Large p-...
Figure S2. Distribution of evolutionary rearrangement breakpoints between human and 12 vertebrate ge...
The abundance of zeroes averaged over resampled data sets. There is a large difference in the number...
Figure S1. Mutual synteny plot of GAS prophages in each prophage group. A-N: The numbers on x-axes c...
<p><b>Copyright information:</b></p><p>Taken from "A statistical analysis of the three-fold evolutio...
Figure S1. The expression profile of RNAi across tissue. The normalized expression plotted across ti...
Figure S13. Correlation between gene turnover and effective population size. A. Gene turnover, T, wa...
Showing the crrelations between non-synonymous substitutions and gene lengths. In these plots, each ...
<p>For 28 nidoviruses representing species diversity, absolute sizes of 3′ORFs (A), ORF1a (B), and O...
Figure S1. Correspondence between Ne estimated from universally distributed genes and from the compl...
Figure S7. Correlation between genome size, pan-genome size, and effective population sizes as compu...
Figure S1. Breakpoint identification accuracy as compared to gene synteny. Considered are adjacent p...
Figure S8. Correlation between genome size and Ne for each lifestyle category. Genome size for a giv...
(1)<p>gene overlaps described previously (see reference <a href="http://www.ploscompbiol.org/article...
Ranking performance at increasing effect size for the main methods. The effect size (fold change) in...
Figure S2. The heat-map p-value of the difference between pairwise posterior distributions. Large p-...
Figure S2. Distribution of evolutionary rearrangement breakpoints between human and 12 vertebrate ge...
The abundance of zeroes averaged over resampled data sets. There is a large difference in the number...
Figure S1. Mutual synteny plot of GAS prophages in each prophage group. A-N: The numbers on x-axes c...
<p><b>Copyright information:</b></p><p>Taken from "A statistical analysis of the three-fold evolutio...
Figure S1. The expression profile of RNAi across tissue. The normalized expression plotted across ti...
Figure S13. Correlation between gene turnover and effective population size. A. Gene turnover, T, wa...