Target Discovery and Validation Reviews and Protocols

50 Imoto et al.
Fig. 9. (continued)
From the Monte Carlo simulations in Tamada et al. (13), this method succeeded
in identifying the target drug-affected genes and pathways with the high coverage
greater than 80%.
3.3.2. Application of Time-Expanded Network Method
From the gene–gene relationships of 735 genes estimated in Subheading
3.2.4., we performed the time-expanded network method to extract drug-active
pathways of the drug griseofulvin. We used the time-course microarray data of
dosing 50 mg/mL, i.e., we used five microarrays corresponding to 0, 15, 30, 45,
and 60 min. Figure 9A shows the identified drug-active pathways in the gene
network estimated in Subheading 3.2.4. The identified drug-active pathways
are colored red.
The identified drug-active pathways are extracted as subnetworks shown in
Fig. 9B. Note that we focus on the subnetworks from the root genes up to the
third descendants. In these drug-active pathways, only nine distinct genes listed