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. 2013 Apr 12;162(2):537–552. doi: 10.1104/pp.112.213546

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Figure 4. — Displacement of orthologs to different clusters under a SOM clustering scheme. Using a traditional SOM approach, orthologs can be assigned to different clusters. Shown is a network representation of the assignment of orthologs to different SOM clusters. Arrows represent the displacement of S. lycopersicum (S. lyco.) orthologs (arrow tips) to clusters other than those occupied by their S. pennellii (S. penn.) counterparts (arrow bases). Arrow sizes are proportional to the number of displaced orthologs. Some trends, such as the tendency for S. pennellii → S. lycopersicum displacement in a SOM cluster 7 → cluster 8 → cluster 9 direction, are similar to trends observed in superSOM clusters (Fig. 3). For example, the SOM cluster 7 → cluster 8 → cluster 9 trend reflects lower expression in the root and higher expression in the stem of S. lycopersicum orthologs, a pattern exhibited by superSOM cluster 6. Pie charts adjacent to each cluster are proportional in size to the number of genes to which they are assigned and depict the relative ratio of S. pennellii (black) and S. lycopersicum (orange) members. Box plots next to each cluster show the expression pattern of cluster members. inf, Inflorescence; lf, leaf; rt, root; sd, seedling; st, stem; veg, vegetative apex. [See online article for color version of this figure.]