Figure 6.

Identification of Downstream Genes of the Circadian Clock Using Perturbed Progression in the osgi Mutant.

(A) A scheme to find downstream genes regulated by core genes both in the wild type and osgi (Supplemental Table 8). Processes for time inference from expression of the core genes are shown in blue and those for prediction of downstream gene expression are in green. The gene expression in osgi was predicted by plugging in internal time in osgi (determined by a combination of core genes in osgi) for physical time and inferring gene expression based on the relationship between the physical time and expression of a downstream gene in the wild type.

(B) Time progression in osgi that most accurately explains the expression of downstream genes. The seven core genes were used for inference of internal time.

(C) A downstream gene with the best prediction performance (Os03g0387900). Note that we can predict a delay in the acute increase at dawn and occasional outlier expression after midnight in osgi relative to the wild type. The corresponding internal time for osgi is delayed from midnight to dawn with occasional severity but jumps in the morning to catch up with the wild type by noon as shown in (B).