This paper discusses the use of spatial graph models for the analysis of networks that do not have a direct spatial reality, such as web graphs, on-line social networks, or citatio...
Presence-absence (0-1) observations are special in that often the absence of evidence is not evidence of absence. Here we develop an independent factor model, which has the unique...
Protein fold recognition is a key step towards inferring the tertiary structures from amino-acid sequences. Complex folds such as those consisting of interacting structural repeat...
Modal logic represents knowledge that agents have about other agents' knowledge. Probabilistic modal logic further captures probabilistic beliefs about probabilistic beliefs....
Time course gene expression experiments are a popular means to infer co-expression. Many methods have been proposed to cluster genes or to build networks based on similarity measu...
Nicola Neretti, Daniel Remondini, Marc Tatar, John...