Abstract
A global comparison of the four basic molecular networks in yeast - regulatory, co-expression, interaction and metabolic - reveals general design principles.
Highlights
Molecular networks are of current interest, with the publication of many large-scale datasets
When we examined the hubs and composite hubs in the regulatory network, we focused only on the regulator population. This makes sense biologically, because we are more interested in how a gene's expression is regulated in different networks; the regulators are the ones that carry out the regulatory functions
Scaffolding of the regulatory network is different from other networks Because all four biological networks are scale-free (Figure 1a; here we only consider the regulator population within the regulatory network), it can be shown that they should share the same hubs by chance alone due to hubs' essentiality (Additional data file 1)
Summary
Molecular networks are of current interest, with the publication of many large-scale datasets. There are other types of biological networks, such as synthetic lethal networks and chromosomal order networks [10,11]; these networks do not overlap with the central dogma and are, not the focus of this paper. Most of these networks are not suitable for large-scale topological analysis because we do not have enough information on them
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