Details

Autor(en) / Beteiligte

• Manem, Venkata
• Adam, George Alexandru
• Gruosso, Tina
• Gigoux, Mathieu
• Bertos, Nicholas
• Park, Morag
• Haibe-Kains, Benjamin

Titel

CrosstalkNet: A Visualization Tool for Differential Co-expression Networks and Communities

Ist Teil von

• Cancer research (Chicago, Ill.), 2018-04, Vol.78 (8), p.2140-2143

Ort / Verlag

United States: American Association for Cancer Research, Inc

Erscheinungsjahr

2018

Quelle

EZB Electronic Journals Library

Beschreibungen/Notizen

• Variations in physiological conditions can rewire molecular interactions between biological compartments, which can yield novel insights into gain or loss of interactions specific to perturbations of interest. Networks are a promising tool to elucidate intercellular interactions, yet exploration of these large-scale networks remains a challenge due to their high dimensionality. To retrieve and mine interactions, we developed CrosstalkNet, a user friendly, web-based network visualization tool that provides a statistical framework to infer condition-specific interactions coupled with a community detection algorithm for bipartite graphs to identify significantly dense subnetworks. As a case study, we used CrosstalkNet to mine a set of 54 and 22 gene-expression profiles from breast tumor and normal samples, respectively, with epithelial and stromal compartments extracted via laser microdissection. We show how CrosstalkNet can be used to explore large-scale co-expression networks and to obtain insights into the biological processes that govern cross-talk between different tumor compartments. This web application enables researchers to mine complex networks and to decipher novel biological processes in tumor epithelial-stroma cross-talk as well as in other studies of intercompartmental interactions. .