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Table 3 Intra- and inter-cluster correlation in the four clusters dominated by S. pyogenes proteins.

From: Stratification of co-evolving genomic groups using ranked phylogenetic profiles

  Mean correlation between all protein-pair combinations† Mean correlation with the cluster-profile†† Mean correlation with the reduced cluster-profile††
  cl 1 cl 4 cl 14 cl 19 Cl 1 cl 4 cl 14 cl 19 cl 1 cl 4 cl 14 cl 19
Cluster 1 0.54 0.30‡ 0.40‡ 0.14‡ 0.56 0.57 0.41‡ 034‡ 0.56 0.52 0.40‡ 034‡
Cluster 4 0.30‡ 0.51 0.17‡ 0.56 0.43‡ 0.53 0.27‡ 0.16‡ 0.00 0.04 0.00 0.00
Cluster 14 0.40 0.17‡ 0.39 0.18‡ 0.44 0.17‡ 0.48 0.27‡ 0.47 0.18‡ 0.49 0.28‡
Cluster 19 0.14‡ 0.56 0.18‡ 0.32 0.22‡ 0.43 0.29‡ 0.47 0.25‡ 0.43 0.31‡ 0.47
  1. Intra-cluster combinations are shown in bold.
  2. † Each cell shows the mean correlation for all possible protein-pair combination between the protein-members of the row-cluster and the protein-members of the column-cluster. Diagonal values show the intra-cluster correlation.
  3. †† Each cell shows the mean correlation between cluster-profile of the row-cluster and all members of the column-cluster.
  4. Reduced cluster profile is composed solely of data points defined as highly-agreeable. Agreeability was calculated for each data point (species) in a cluster as the inverse coefficient of variation weighted by the fraction of appearances of a species in a cluster:
  5. Agr = (mean*app)/(sd*mmb)
  6. Where mean is the mean position of a species in a cluster; app is the number of appearances of a species in a cluster; sd is the standard deviation calculated for the species; and mmb is number of proteins in a cluster.
  7. Data points for which Agr > 0.5 are considered highly agreeable.
  8. ‡ The inter-cluster correlation is significantly lower than the intra-cluster correlation observed for the row-cluster. Significance is defined as P value < 0.05 in the Wilcoxon rank sum test (equivalent to the Mann-Whitney test).