Denoising and Untangling Graphs Using Degree Priors

This paper addresses the problem of untangling hidden graphs from a set of noisy detections of undirected edges. We present a model of the generation of the observed graph that includes degree-based structure priors on the hidden graphs. Exact inference in the model is intractable; we present an efficient approximate inference algorithm to compute edge appearance posteriors. We evaluate our model and algorithm on a biological graph inference problem.

[1]  Albert,et al.  Emergence of scaling in random networks , 1999, Science.

[2]  M. Mézard,et al.  Analytic and Algorithmic Solution of Random Satisfiability Problems , 2002, Science.

[3]  Yoshihide Hayashizaki,et al.  Construction of reliable protein-protein interaction networks with a new interaction generality measure , 2003, Bioinform..

[4]  B. Snel,et al.  Comparative assessment of large-scale data sets of protein–protein interactions , 2002, Nature.

[5]  Michael I. Jordan,et al.  Loopy Belief Propagation for Approximate Inference: An Empirical Study , 1999, UAI.

[6]  Brendan J. Frey,et al.  Probability Propagation and Iterative Decoding , 1996 .

[7]  Andrey Rzhetsky,et al.  Towards the Prediction of Complete Protein-Protein Interaction Networks , 2001, Pacific Symposium on Biocomputing.

[8]  William T. Freeman,et al.  Learning low-level vision , 1999, Proceedings of the Seventh IEEE International Conference on Computer Vision.

[9]  Michalis Faloutsos,et al.  On power-law relationships of the Internet topology , 1999, SIGCOMM '99.

[10]  Radford M. Neal,et al.  Near Shannon limit performance of low density parity check codes , 1996 .

[11]  R. Albert,et al.  The large-scale organization of metabolic networks , 2000, Nature.

[12]  Judea Pearl,et al.  Probabilistic reasoning in intelligent systems - networks of plausible inference , 1991, Morgan Kaufmann series in representation and reasoning.

[13]  Andrey Rzhetsky,et al.  Birth of scale-free molecular networks and the number of distinct DNA and protein domains per genome , 2001, Bioinform..

[14]  Judea Pearl,et al.  Probabilistic reasoning in intelligent systems , 1988 .

[15]  Michael I. Jordan Learning in Graphical Models , 1999, NATO ASI Series.

[16]  Brendan J. Frey,et al.  Very loopy belief propagation for unwrapping phase images , 2001, NIPS.

[17]  X. Jin Factor graphs and the Sum-Product Algorithm , 2002 .

[18]  D. Goldberg,et al.  Assessing experimentally derived interactions in a small world , 2003, Proceedings of the National Academy of Sciences of the United States of America.