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Comprehensive reconstruction and visualization of non-coding regulatory networks in human

Research attention has been powered to understand the functional roles of non-coding RNAs (ncRNAs). Many studies have demonstrated their deregulation in cancer and other human disorders. ncRNAs are also present in extracellular human body fluids such as serum and plasma, giving them a great potential as non-invasive biomarkers. However, non-coding RNAs have been relatively recently discovered and a comprehensive database including all of them is still missing. Reconstructing and visualizing the network of ncRNAs interactions are important steps to understand their regulatory mechanism in complex systems. 
This work presents ncRNA-DB, a NoSQL database that integrates ncRNAs data interactions from a large number of well established online repositories. The interactions involve RNA, DNA, proteins and diseases. ncRNA-DB is available at http://ncrnadb.scienze.univr.it/ncrnadb/. It is equipped with three interfaces: web based, command line and a Cytoscape app called ncINetView. By accessing only one resource, users can search for ncRNAs and their interactions, build a network annotated with all known ncRNAs and associated diseases, and use all visual and mining features available in Cytoscape.


Frontiers in Bioengineering and Biotechnology, 2014

Autori esterni: Vincenzo Bonnici (Department of Computer Science, University of Verona, Verona, Italy), Nicola Bombieri (Department of Computer Science, University of Verona, Verona, Italy), Alfredo Pulvirenti (Department of Clinical and Molecular Biomedicine, University of Catania, Italy), Rosalba Giugno (Department of Clinical and Molecular Biomedicine, University of Catania, Italy)
Autori IIT:

Francesco Russo

Foto di Francesco Russo

Tipo: Articoli su riviste non ISI con referee internazionali
Area di disciplina: Computer Science & Engineering

Attività: Biologia computazionale