It is well established that the vast majority of human RNA transcripts do not encode for
proteins and that non-coding RNAs regulate cell physiology and shape cellular functions. A …

Networks are one of the most common ways to represent biological systems as complex sets
of binary interactions or relations between different bioentities. In this article, we discuss the …

Despite considerable progress in genome-and proteome-based high-throughput screening
methods and in rational drug design, the increase in approved drugs in the past decade did …

Cytoscape is a free software package for visualizing, modeling and analyzing molecular and
genetic interaction networks. This protocol explains how to use Cytoscape to analyze the …

Background Graphs can represent biological networks at the molecular, protein, or species
level. An important query is to find all matches of a pattern graph to a target graph …

Complex diseases like cancer are regulated by large, interconnected networks with many
pathways affecting cell proliferation, invasion, and drug resistance. However, current cancer …

Alternative techniques and tools for analyzing biomolecular networks With the recent rapid
advances in molecular biology, high-throughput experimental methods have resulted in …

Studying proteins and their structures has an important role for understanding protein
functionalities. Recently, due to important results obtained with proteomics, a great interest …

The MiMI molecular interaction repository integrates data from multiple sources, resolves
interactions to standard gene names and symbols, links to annotation data from GO, MeSH …

In the network querying problem, one is given a protein complex or pathway of species A
and a protein–protein interaction network of species B; the goal is to identify subnetworks of …