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CrosstalkNet: A Visualization Tool for Differential Co-expression Networks and Communities.
Manem, Venkata; Adam, George Alexandru; Gruosso, Tina; Gigoux, Mathieu; Bertos, Nicholas; Park, Morag; Haibe-Kains, Benjamin.
Afiliação
  • Manem V; Princess Margaret Cancer Centre, University Health Network, Toronto, Ontario, Canada.
  • Adam GA; Department of Medical Biophysics, University of Toronto, Toronto, Ontario, Canada.
  • Gruosso T; Princess Margaret Cancer Centre, University Health Network, Toronto, Ontario, Canada.
  • Gigoux M; Department of Medical Biophysics, University of Toronto, Toronto, Ontario, Canada.
  • Bertos N; Goodman Cancer Research Centre, McGill University, Montreal, Canada.
  • Park M; Goodman Cancer Research Centre, McGill University, Montreal, Canada.
  • Haibe-Kains B; Goodman Cancer Research Centre, McGill University, Montreal, Canada.
Cancer Res ; 78(8): 2140-2143, 2018 04 15.
Article em En | MEDLINE | ID: mdl-29459407
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.Significance: 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. Cancer Res; 78(8); 2140-3. ©2018 AACR.
Assuntos

Texto completo: 1 Coleções: 01-internacional Base de dados: MEDLINE Assunto principal: Perfilação da Expressão Gênica / Redes Reguladoras de Genes Limite: Female / Humans Idioma: En Revista: Cancer Res Ano de publicação: 2018 Tipo de documento: Article País de afiliação: Canadá

Texto completo: 1 Coleções: 01-internacional Base de dados: MEDLINE Assunto principal: Perfilação da Expressão Gênica / Redes Reguladoras de Genes Limite: Female / Humans Idioma: En Revista: Cancer Res Ano de publicação: 2018 Tipo de documento: Article País de afiliação: Canadá