The paraventricular thalamic nucleus (PVT) is a midline nucleus with strong connections to cortical and subcortical brain regions such as the prefrontal cortex, amygdala, nucleus accumbens and hippocampus and receives strong projections from brain stem nuclei. Prepulse inhibition (PPI) is mediated and modulated by complex cortical and subcortical networks that are yet to be fully identified in ...

One of the most important problems in complex networks is how to detect metadata groups accurately. The main challenge lies in the fact that traditional structural communities do not always capture the intrinsic features of metadata groups. Motivated by the observation that metadata groups in PPI networks tend to consist of an abundance of interacting triad motifs, we define a 2-club substructu...

By Mudita Singhal, Ph.D. Washington State University December 2007 Chair: John H. Miller The response of biological systems to external stimuli is ruled by their cellular interaction networks. This makes the problem of inferring cellular interaction networks essential to decipher the basic operational principles of biological systems. Knowing which proteins exist in a certain organism or cell t...

A novel breadth-first based structural clustering method for graphs is proposed. Clustering is an important task for analyzing complex networks such as biological networks, World Wide Web and social networks. The clusters are of various shapes such as cliques and stars, for example, in ProteinProtein Interactive(PPI) networks. Traditional algorithms may detect clique-shaped clusters, but they f...

MOTIVATION Finding a good network null model for protein-protein interaction (PPI) networks is a fundamental issue. Such a model would provide insights into the interplay between network structure and biological function as well as into evolution. Also, network (graph) models are used to guide biological experiments and discover new biological features. It has been proposed that geometric rando...

PPI(Protein-Protein Interaction) networks are defined as the set of relationships among proteins. PPI data of the networks are very important, because they are used in predicting feature of unknown proteins. The prediction using PPI data has more reliability than other methods such as sequence or homology[1,3]. The significance of protein feature prediction is increasing more and more because t...

In protein-protein interaction (PPI) networks, functional similarity is often inferred based on the function of directly interacting proteins, or more generally, some notion of interaction network proximity among proteins in a local neighborhood. Prior methods typically measure proximity as the shortest-path distance in the network, but this has only a limited ability to capture fine-grained ne...