ArticleBioinformatics (Oxford, England)2019
The Cytoscape BioGateway App: explorative network building from the BioGateway triple store.
Article in Bioinformatics (Oxford, England), 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 9 papers.
What it found
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
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Who cites it
9 citing papers in PubMed.
- Exploring the Mechanism of 2'-Hydroxychalcone Improving Copper Sulfate-Induced Inflammation in Zebrafish Through Network Pharmacology.Drug design, development and therapy · 2025Article
- Integration of chromosome locations and functional aspects of enhancers and topologically associating domains in knowledge graphs enables versatile queries about gene regulation.Nucleic acids research · 2024Article
- FAIRification of health-related data using semantic web technologies in the Swiss Personalized Health Network.Scientific data · 2023Article
- Exploring the molecular mechanism of Sishen Decoction in the treatment of rheumatoid arthritis.Annals of translational medicine · 2022Article
- APPINetwork: an R package for building and computational analysis of protein-protein interaction networks.PeerJ · 2022Article
- IntAct App: a Cytoscape application for molecular interaction network visualization and analysis.Bioinformatics (Oxford, England) · 2021Article
- The status of causality in biological databases: data resources and data retrieval possibilities to support logical modeling.Briefings in bioinformatics · 2021Article
- The modulatory properties ofPeerJ · 2021Article
- Bioinformatics analysis of laryngeal squamous cell carcinoma: seeking key candidate genes and pathways.PeerJ · 2021Article
Corrections and comments
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Authors and funding
5 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
summaryThe BioGateway App is a Cytoscape (version 3) plugin designed to provide easy query access to the BioGateway RDF 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 visualised using the inherent flexibility of the Cytoscape framework, and network links can be checked against curated database records or against the original publication. AVAILABILITY: 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.
Identifiers
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.