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In the top left dendrogram none of the other clusters share a common motif.
This remains true for cluster number 3 (composed of the same organisms) in the bottom left dendrogram.
By comparing the resulting dendrogram with the top left dendrogram in Figure 4 one can notice that all clusters now share a quite significant motif, which is to say, the absence of the outlier organisms allow them to be more cohesive.
In Figure 4 we show the most relevant partitions: we consider 3 clusters (top left dendrogram), 8 clusters (top right dendrogram), 12 clusters (bottom left dendrogram) and 19 clusters (bottom right dendrogram), respectively.
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(B ) Dendrogram (left) and correlation matrix (right) summarizing all pair-wise comparisons.
As a consequence of the batch effect, several unique clusters were observed for the RA and OA patients (right and left branches of the dendrogram), but other clusters were mixed and contained members of both groups.
The left (red) branch of the dendrogram includes all of the basal-like tumors and only nine non-basal tumor samples (seven are HER2+/ER− tumors and two are luminal-type tumors) (Figure 5A, Table 4).
The vertical axis of dendrograms is often left unlabeled since the values are on an arbitrary scale, but in this case they have a direct interpretation as "excess dispersion".
At each branch, the mean correlation between neighboring clusters left and right of the new branch on the dendrogram is calculated for both potential orders of the clusters below the branch.
A dendrogram of these TMRCA computations was shown in Figure 1 (left panel, with town locations shown on the map in the right-hand panel).
From the sample dendrogram and the heatmap, three groups can be derived for all remaining samples (from left to right): S091-S078, S81-S9080, S81-S90.
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Since I tried Ludwig back in 2017, I have been constantly using it in both editing and translation. Ever since, I suggest it to my translators at ProSciEditing.

Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com