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 …

Learning graph representations is a fundamental task aimed at capturing various properties
of graphs in vector space. The most recent methods learn such representations for static …

The prediction of interactions in protein networks is very critical in various biological
processes. In recent years, scientists have focused on computational approaches to predict …

The increasing growth of online social networks has drawn researchers' attention to link
prediction and has been adopted in many fields, including computer sciences, information …

Computational analysis and interactive visualization of biological networks and protein
structures are common tasks for gaining insight into biological processes. This protocol …

Most tools developed to visualize hierarchically clustered heatmaps generate static images.
Clustergrammer is a web-based visualization tool with interactive features such as: zooming …

Understanding complex systems often requires a bottom-up analysis towards a systems
biology approach. The need to investigate a system, not only as individual components but …

High-throughput studies of biological systems are rapidly accumulating a wealth of'omics'-
scale data. Visualization is a key aspect of both the analysis and understanding of these …

The latest advances in high-throughput techniques during the past decade allowed the
systems biology field to expand significantly. Today, the focus of biologists has shifted from …