The protein-protein interaction (PPI) network of an organism serves as a skeleton for its
signaling circuitry, which mediates cellular response to environmental and genetic cues …

Molecular networks represent the interactions and relations of genes/proteins, and also
encode molecular mechanisms of biological processes, development and diseases. Among …

Stressed cells coordinate a multi‐faceted response spanning many levels of physiology. Yet
knowledge of the complete stress‐activated regulatory network as well as design principles …

The advent of high-throughput genomics techniques, along with the completion of genome
sequencing projects, identification of protein–protein interactions and reconstruction of …

The graph orientation problem calls for orienting the edges of a graph so as to maximize the
number of pre-specified source–target vertex pairs that admit a directed path from the source …

Graph orientation is a fundamental problem in graph theory that has recently arisen in the
study of signaling-regulatory pathways in protein networks. Given a graph and a list of …

Transcriptional regulatory networks specify the regulatory proteins of target genes that
control the context-specific expression levels of genes. With our ability to profile the different …

Background We consider the following problem: Given an undirected network and a set of
sender–receiver pairs, direct all edges such that the maximum number of" signal flows" …

The graph orientation problem calls for orienting the edges of an undirected graph so as to
maximize the number of prespecified source-target vertex pairs that admit a directed path …

We consider connectivity problems with orientation constraints. Given a directed graph D
and a collection of ordered node pairs P let PD={(u,v)∈P:Dcontainsauv-path\}. In the\sf …