The Cytoscape BioGateway App: explorative network building from an RDF store

Abstract Summary The BioGateway App is a Cytoscape (version 3) plugin designed to provide easy query access to the BioGateway Resource Description Framework triple store, which contains functional and interaction information for proteins from several curated resources. For explorative network building, we have added a comprehensive dataset with regulatory relationships of mammalian DNA-binding transcription factors and their target genes, compiled both from curated resources and from a text mining effort. Query results are visualized using the inherent flexibility of the Cytoscape framework, and network links can be checked against curated database records or against the original publication. Availability and implementation Install through the Cytoscape application manager or visit www.biogateway.eu for download and tutorial documents. Supplementary information Supplementary information is available at Bioinformatics online.

• Publication year

  2019

• Venue

  Bioinform.

• Publication date

  2019-11-09

• Fields of study

  Biology, Medicine, Computer Science

• Identifiers
  DOI 10.1093/bioinformatics/btz835PMID 31710663PMCID 7703768
• External record

  Open on Semantic Scholar

• Source metadata

  Semantic Scholar, PubMed

• No claims are published for this paper.

• No concepts are published for this paper.

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