Fig. 3

Identification of gene modules, including function links between light and dark condition in Chlamydomonas reinhardtii. We applied ManiNetCluster to the algal time series diurnal transcriptomes [42]. For the purposes of these analyses, the transcriptomes collected during the light period were treated as an independent experiment from those collected during the dark period. In total, we identified 60 gene modules. The proportion of each module comprised of light period specific (yellow), dark period specific (purple), and shared (teal) is shown. Module size is indicated on the right of the modules. Further on the right are functional linkage scores; high scores (highlighted in black) indicate functional linkage modules. (See Tables S1 and S2 for details of all modules)