cyNeo4j: connecting Neo4j and Cytoscape

Summary: We developed cyNeo4j, a Cytoscape App to link Cytoscape and Neo4j databases to utilize the performance and storage capacities Neo4j offers. We implemented a Neo4j NetworkAnalyzer, ForceAtlas2 layout and Cypher component to demonstrate the possibilities a distributed setup of Cytoscape and N...

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Detalles Bibliográficos
Autores principales: Summer, Georg, Kelder, Thomas, Ono, Keiichiro, Radonjic, Marijana, Heymans, Stephane, Demchak, Barry
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Oxford University Press 2015
Materias:
Applications Notes
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4653389/
https://www.ncbi.nlm.nih.gov/pubmed/26272981
http://dx.doi.org/10.1093/bioinformatics/btv460
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author Summer, Georg
Kelder, Thomas
Ono, Keiichiro
Radonjic, Marijana
Heymans, Stephane
Demchak, Barry
author_facet Summer, Georg
Kelder, Thomas
Ono, Keiichiro
Radonjic, Marijana
Heymans, Stephane
Demchak, Barry
author_sort Summer, Georg
collection PubMed
description Summary: We developed cyNeo4j, a Cytoscape App to link Cytoscape and Neo4j databases to utilize the performance and storage capacities Neo4j offers. We implemented a Neo4j NetworkAnalyzer, ForceAtlas2 layout and Cypher component to demonstrate the possibilities a distributed setup of Cytoscape and Neo4j have. Availability and implementation: The app is available from the Cytoscape App Store at http://apps.cytoscape.org/apps/cyneo4j, the Neo4j plugins at www.github.com/gsummer/cyneo4j-parent and the community and commercial editions of Neo4j can be found at http://www.neo4j.com. Contact: georg.summer@gmail.com
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spelling pubmed-46533892015-11-20 cyNeo4j: connecting Neo4j and Cytoscape Summer, Georg Kelder, Thomas Ono, Keiichiro Radonjic, Marijana Heymans, Stephane Demchak, Barry Bioinformatics Applications Notes Summary: We developed cyNeo4j, a Cytoscape App to link Cytoscape and Neo4j databases to utilize the performance and storage capacities Neo4j offers. We implemented a Neo4j NetworkAnalyzer, ForceAtlas2 layout and Cypher component to demonstrate the possibilities a distributed setup of Cytoscape and Neo4j have. Availability and implementation: The app is available from the Cytoscape App Store at http://apps.cytoscape.org/apps/cyneo4j, the Neo4j plugins at www.github.com/gsummer/cyneo4j-parent and the community and commercial editions of Neo4j can be found at http://www.neo4j.com. Contact: georg.summer@gmail.com Oxford University Press 2015-12-01 2015-08-12 /pmc/articles/PMC4653389/ /pubmed/26272981 http://dx.doi.org/10.1093/bioinformatics/btv460 Text en © The Author 2015. Published by Oxford University Press. http://creativecommons.org/licenses/by/4.0/ This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly cited.
spellingShingle Applications Notes
Summer, Georg
Kelder, Thomas
Ono, Keiichiro
Radonjic, Marijana
Heymans, Stephane
Demchak, Barry
cyNeo4j: connecting Neo4j and Cytoscape
title cyNeo4j: connecting Neo4j and Cytoscape
title_full cyNeo4j: connecting Neo4j and Cytoscape
title_fullStr cyNeo4j: connecting Neo4j and Cytoscape
title_full_unstemmed cyNeo4j: connecting Neo4j and Cytoscape
title_short cyNeo4j: connecting Neo4j and Cytoscape
title_sort cyneo4j: connecting neo4j and cytoscape
topic Applications Notes
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4653389/
https://www.ncbi.nlm.nih.gov/pubmed/26272981
http://dx.doi.org/10.1093/bioinformatics/btv460
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AT heymansstephane cyneo4jconnectingneo4jandcytoscape
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