On large deviation properties of Erdos-Renyi random graphs

We show that large deviation properties of Erd\"os-R\'enyi random graphs can be derived from the free energy of the $q$-state Potts model of statistical mechanics. More precisely the Legendre transform of the Potts free energy with respect to $\ln q$ is related to the component generating function of the graph ensemble. This generalizes the well-known mapping between typical properties of random graphs and the $q\to 1$ limit of the Potts free energy. For exponentially rare graphs we explicitly calculate the number of components, the size of the giant component, the degree distributions inside and outside the giant component, and the distribution of small component sizes. We also perform numerical simulations which are in very good agreement with our analytical work. Finally we demonstrate how the same results can be derived by studying the evolution of random graphs under the insertion of new vertices and edges, without recourse to the thermodynamics of the Potts model.Comment: 38 pages, 9 figures, Latex2e, corrected and extended version including numerical simulation result

Integrative Network Biology: Graph Prototyping for Co-Expression Cancer Networks

Network-based analysis has been proven useful in biologically-oriented areas, e.g., to explore the dynamics and complexity of biological networks. Investigating a set of networks allows deriving general knowledge about the underlying topological and functional properties. The integrative analysis of networks typically combines networks from different studies that investigate the same or similar research questions. In order to perform an integrative analysis it is often necessary to compare the properties of matching edges across the data set. This identification of common edges is often burdensome and computational intensive. Here, we present an approach that is different from inferring a new network based on common features. Instead, we select one network as a graph prototype, which then represents a set of comparable network objects, as it has the least average distance to all other networks in the same set. We demonstrate the usefulness of the graph prototyping approach on a set of prostate cancer networks and a set of corresponding benign networks. We further show that the distances within the cancer group and the benign group are statistically different depending on the utilized distance measure