Computing Diffusion State Distance using Green's Function and Heat Kernel on Graphs

Abstract

The diffusion state distance (DSD) was introduced by Cao-Zhang-Park-Daniels-Crovella-Cowen-Hescott [{\em PLoS ONE, 2013}] to capture functional similarity in protein-protein interaction networks. They proved the convergence of DSD for non-bipartite graphs. In this paper, we extend the DSD to bipartite graphs using lazy-random walks and consider the general $L_q$-version of DSD. We discovered the connection between the DSD $L_q$-distance and Green's function, which was studied by Chung and Yau [{\em J. Combinatorial Theory (A), 2000}]. Based on that, we computed the DSD $L_q$-distance for Paths, Cycles, Hypercubes, as well as random graphs $G(n,p)$ and $G(w_1,..., w_n)$. We also examined the DSD distances of two biological networks.