We have adopted an integrated, systematic approach to assess, refine, and extend the
galactose-utilization (GAL) pathway in the yeast Saccharomyces cerevisiae. First, the GAL pathway was exposed to a battery of twenty perturbations, in which key genes were deleted
from the yeast genome and/or key environmental stimuli were altered. Next,
whole-genome DNA microarrays and global proteomics were used to track changes in mRNA and protein.
To address expression changes in genes outside of the GAL pathway, we
have constructed a network of all known molecular
interactions in yeast, drawing data from publicly-accessible databases
of protein-protein and protein-DNA interactions. To date, we have been
able to explain 20-40% of all gene expression changes, most of which
occur in various metabolic pathways, with plausible physical
interactions in the network.
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