Figure 4

Cluster of genes of high positive co-expression with calcyon in the mouse brain. Each of the genes shown had a Pearson correlation coefficient of mRNA profiles with calcyon exceeding r > 0.55 (P < 0.001). Because of the high number of such connections between genes (~8 links per gene), the ARACNE algorithm [46] was applied to reduce connectivity straightforwardly. Namely, for each triangle (genes i, j, and k connected to each other) the algorithm removed the weakest 3 links; thus the number of links was reduced 6-fold while all the linked genes were retained. Note that even though some genes have a distant path to calcyon (1 or 2 nodes away), each had a Pearson correlation value with calcyon r > 0.55. Nodes (genes); Yellow diamond (Calcyon); Color triangles (Members of known metabolic pathways); Grey circles (Other genes producing a tight cluster of mutually co-expressed genes around calcyon). For further details about the annotations see Table 1.