Background: The definition of a distance measure plays a key role in the evaluation of different clustering solutions of gene expression profiles. In this empirical study we compa...
Background: Microarray co-expression signatures are an important tool for studying gene function and relations between genes. In addition to genuine biological co-expression, corr...
Background: Cis-regulatory modules are combinations of regulatory elements occurring in close proximity to each other that control the spatial and temporal expression of genes. Th...
Voichita D. Marinescu, Isaac S. Kohane, Alberto Ri...
PathwayTools is a production-quality software environment for creating a type of model-organism database called a Pathway/Genome Database (PGDB). A PGDB such as EcoCyc integrates ...
Peter D. Karp, Suzanne M. Paley, Markus Krummenack...
We define the concept of dependence among multiple variables using maximum entropy techniques and introduce a graphical notation to denote the dependencies. Direct inference of in...