Simultaneous Genome-Wide Inference of Physical, Genetic, Regulatory, and Functional Pathway Components
Figure 3
Examining the mechanisms of protein interactions within the yeast carbon metabolism and cellular transport pathways.
A) Predicted interactions of four specific types combined to assemble B) (arrows in black representing our final predicted pathway interactions) a pathway connecting the transcription factor Adr1 involved in carbon metabolism process to its regulatory input Snf1. This generates two concrete hypotheses suggesting, first, cross-talk between the calmodulin- and Snf1-dependent pathways via Cmk2 phosphorylating Glc7. Second, we also predict coordinated regulation between the glycogen breakdown and glucose utilization pathways through a metabolic interaction between Adr1 and Gph1. C) Previously known and newly predicted interactions in yeast protein transport connecting the plasma membrane, vacuole, golgi and ER. We propose a regulatory competition between the Arf1 and Vsp1 GTPases for Bch1 functionality that is likely regulated by GTP availability, which itself is known to be regulated by protein sorting events in the cell. These predictions also hypothesize that YDL012c may be involved in regulating Vps1 activity.