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

Research output: Contribution to journalJournal articleResearchpeer-review

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 on-line repositories. The interactions involve RNA, DNA, proteins, and diseases. ncRNA-DB is available at 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.

Original languageEnglish
Article number69
JournalFrontiers in Bioengineering and Biotechnology
Issue numberDEC
Publication statusPublished - 1 Jan 2014

    Research areas

  • Cytoscape, Gene expression, LncRNAs, MicroRNAs, Networks, Non-coding RNAs

ID: 209066073