NOA: a cytoscape plugin for network ontology analysis

Summary: The Network Ontology Analysis (NOA) plugin for Cytoscape implements the NOA algorithm for network-based enrichment analysis, which extends Gene Ontology annotations to network links, or edges. The plugin facilitates the annotation and analysis of one or more networks in Cytoscape according...

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Detalles Bibliográficos
Autores principales: Zhang, Chao, Wang, Jiguang, Hanspers, Kristina, Xu, Dong, Chen, Luonan, Pico, Alexander R.
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Oxford University Press 2013
Materias:
Applications Notes
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3722524/
https://www.ncbi.nlm.nih.gov/pubmed/23749961
http://dx.doi.org/10.1093/bioinformatics/btt334
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author Zhang, Chao
Wang, Jiguang
Hanspers, Kristina
Xu, Dong
Chen, Luonan
Pico, Alexander R.
author_facet Zhang, Chao
Wang, Jiguang
Hanspers, Kristina
Xu, Dong
Chen, Luonan
Pico, Alexander R.
author_sort Zhang, Chao
collection PubMed
description Summary: The Network Ontology Analysis (NOA) plugin for Cytoscape implements the NOA algorithm for network-based enrichment analysis, which extends Gene Ontology annotations to network links, or edges. The plugin facilitates the annotation and analysis of one or more networks in Cytoscape according to user-defined parameters. In addition to tables, the NOA plugin also presents results in the form of heatmaps and overview networks in Cytoscape, which can be exported for publication figures. Availability: The NOA plugin is an open source, Java program for Cytoscape version 2.8 available via the Cytoscape App Store (http://apps.cytoscape.org/apps/noa) and plugin manager. A detailed user manual is available at http://nrnb.org/tools/noa. Contact: apico@gladstone.ucsf.edu Supplementary information: Supplementary data are available at Bioinformatics online.
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spelling pubmed-37225242013-07-25 NOA: a cytoscape plugin for network ontology analysis Zhang, Chao Wang, Jiguang Hanspers, Kristina Xu, Dong Chen, Luonan Pico, Alexander R. Bioinformatics Applications Notes Summary: The Network Ontology Analysis (NOA) plugin for Cytoscape implements the NOA algorithm for network-based enrichment analysis, which extends Gene Ontology annotations to network links, or edges. The plugin facilitates the annotation and analysis of one or more networks in Cytoscape according to user-defined parameters. In addition to tables, the NOA plugin also presents results in the form of heatmaps and overview networks in Cytoscape, which can be exported for publication figures. Availability: The NOA plugin is an open source, Java program for Cytoscape version 2.8 available via the Cytoscape App Store (http://apps.cytoscape.org/apps/noa) and plugin manager. A detailed user manual is available at http://nrnb.org/tools/noa. Contact: apico@gladstone.ucsf.edu Supplementary information: Supplementary data are available at Bioinformatics online. Oxford University Press 2013-08-15 2013-06-07 /pmc/articles/PMC3722524/ /pubmed/23749961 http://dx.doi.org/10.1093/bioinformatics/btt334 Text en © The Author 2013. Published by Oxford University Press. All rights reserved. http://creativecommons.org/licenses/by/3.0/ This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/3.0/), which permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly cited.
spellingShingle Applications Notes
Zhang, Chao
Wang, Jiguang
Hanspers, Kristina
Xu, Dong
Chen, Luonan
Pico, Alexander R.
NOA: a cytoscape plugin for network ontology analysis
title NOA: a cytoscape plugin for network ontology analysis
title_full NOA: a cytoscape plugin for network ontology analysis
title_fullStr NOA: a cytoscape plugin for network ontology analysis
title_full_unstemmed NOA: a cytoscape plugin for network ontology analysis
title_short NOA: a cytoscape plugin for network ontology analysis
title_sort noa: a cytoscape plugin for network ontology analysis
topic Applications Notes
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3722524/
https://www.ncbi.nlm.nih.gov/pubmed/23749961
http://dx.doi.org/10.1093/bioinformatics/btt334
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AT xudong noaacytoscapepluginfornetworkontologyanalysis
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