… of a network motif profile analysis, we demonstrate the existence of two classes of miRNAs
with distinct network topological … of miRNAs may be wired in the regulatory network topology. …

… An important class of methods in Systems Biology deals with structural or topological (parameter-free)
analysis of cellular networks. So far, software tools providing such methods for …

… network of S. cerevisiae, here we systematically analyze the relationship between the topology
… We start by demonstrating that the four protein interaction networks are characterized by …

… their topological features, and illustrative examples are described to show how the analysis
… detailed and formal understanding of the signaling dynamics. This discussion is followed by …

… Using multiple replicas of MD simulations and various network topology metrics (edge …
network topology. The improved stability of topology allows us to generate a delta-network …

… External signals, conveyed by various signaling mechanisms, may be perceived by signal-…
responses to these signals are encoded into the topology of the TR network we first examined …

… Therefore, to understand the mechanisms by which interacting components achieve
dynamic behaviors, topological analysis of cellular networks is insufficient. Dynamic modeling …

… signaling networks solely from the PPI data. We used the directed PPI network model to
analyze … to predict the edge direction from topological network properties as well as shortest PPI …

… , called network component analysis, for uncovering hidden regulatory signals from outputs
of networked systems, when only a partial knowledge of the underlying network topology is …

… This would enable the testing of millions of different options in terms of topology of
signaling networks, therapeutic regimens, and drug/target combinations. This should allow the …