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The clustered profiles with p-value ≤ 0.05 were considered as significantly expressed.
Clustered profiles were shared by 1,225 isolates, giving a clustering rate of 54.2%.
Clustered profiles using only the isolated clusters were generally comparable to cluster profiles from the full sets of expressed RTSSs.
Thirty-two different spoligotyping profiles were found: 16 unique patterns (n = 16) and 16 clustered profiles (n = 88).
The specific behavior of these genes can be appreciated also in the heatmap of the clustered profiles (Additional file 3), which also shows a clear segregation of M3 samples.
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The procedures for converging and clustering profiles are described in detail elsewhere [ 10, 11].
We found that the reproducibility of clustering profiles among two mapping populations was very high.
Since reproducibility of clustering profiles between two mapping population is very high, manual clustering for each population is not required.
Figure 4 shows clustering profiles of moonlighting proteins, where GO terms in BP and MF were clustered using single linkage clustering at different SS Rel cutoff values.
Clustering profiles of the identified moonlighting and non-moonlighting proteins in E. coli are shown in Figure 4 in comparison with the MPR1-3 datasets.
Hierarchical clustering, which groups profiles on the basis of overall correlation [43], showed that, for mouse cells, the SEN(OXI) secretory profiles clustered with the PRE profiles, whereas the SEN XRA) profiles formed an outlier cluster (Fig. 1F; Fig. S1B).
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