Fig. 3

Contributions of classifier mechanisms and underlying genes to classifier score. Each classifier mechanism is connected to the genes used to compute its score. Mechanisms are colored based on their direction of contribution to the classifier score (the sign of the coefficient from Table 2). Genes are colored based on their direction and degree of contribution to the classifier score, calculated from their contribution to each mechanism score and the coefficient for each mechanism. Interconnectedness indicates the overlaps between the gene sets that contribute to each mechanism score. Mechanisms with large numbers of supporting genes tend to have lower contributions at the gene level due to the equal contribution of each supporting gene to the mechanism score (see Methods), effectively diluting the contribution of each gene. Gene names were omitted for clarity. See Additional file 3 for the full Cytoscape model