SpotXplore: A Cytoscape plugin for visual exploration of hotspot expression in gene regulatory networks

Michel A. Westenberg; Jos B. T. M. Roerdink; Oscar P. Kuipers; Sacha A. F. T. van Hijum

doi:10.1093/bioinformatics/btq535

SpotXplore: A Cytoscape plugin for visual exploration of hotspot expression in gene regulatory networks

Michel A. Westenberg^*, Jos B. T. M. Roerdink, Oscar P. Kuipers, Sacha A. F. T. van Hijum

^*Corresponding author for this work

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Abstract

SpotXplore is a plugin for Cytoscape for extraction and visualization of differentially expressed subnetworks (hotspots) from gene networks. The hotspot-based visualization approach enables interactive exploration of regulatory interactions in differentially expressed gene sets, and it allows a researcher to explore gene expression in direct relation to the affected cellular gene network. The hotspots provide a view beyond the commonly used metabolic pathways and gene ontologies.

Original language	English
Pages (from-to)	2922-2923
Number of pages	2
Journal	Bioinformatics
Volume	26
Issue number	22
DOIs	https://doi.org/10.1093/bioinformatics/btq535
Publication status	Published - Nov-2010

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SpotXplore: a Cytoscape plugin for visual exploration of hotspotexpression in gene regulatory networksFinal publisher's version, 248 KBLicence: CC BY-NC

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title = "SpotXplore: A Cytoscape plugin for visual exploration of hotspot expression in gene regulatory networks",

abstract = "SpotXplore is a plugin for Cytoscape for extraction and visualization of differentially expressed subnetworks (hotspots) from gene networks. The hotspot-based visualization approach enables interactive exploration of regulatory interactions in differentially expressed gene sets, and it allows a researcher to explore gene expression in direct relation to the affected cellular gene network. The hotspots provide a view beyond the commonly used metabolic pathways and gene ontologies.",

author = "Westenberg, {Michel A.} and Roerdink, {Jos B. T. M.} and Kuipers, {Oscar P.} and {van Hijum}, {Sacha A. F. T.}",

note = "Relation: http://www.rug.nl/informatica/onderzoek/bernoulli Rights: University of Groningen, Johann Bernoulli Institute for Mathematics and Computer Science",

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AU - Westenberg, Michel A.

AU - Roerdink, Jos B. T. M.

AU - Kuipers, Oscar P.

AU - van Hijum, Sacha A. F. T.

N1 - Relation: http://www.rug.nl/informatica/onderzoek/bernoulli Rights: University of Groningen, Johann Bernoulli Institute for Mathematics and Computer Science

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AB - SpotXplore is a plugin for Cytoscape for extraction and visualization of differentially expressed subnetworks (hotspots) from gene networks. The hotspot-based visualization approach enables interactive exploration of regulatory interactions in differentially expressed gene sets, and it allows a researcher to explore gene expression in direct relation to the affected cellular gene network. The hotspots provide a view beyond the commonly used metabolic pathways and gene ontologies.

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DO - 10.1093/bioinformatics/btq535

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SpotXplore: A Cytoscape plugin for visual exploration of hotspot expression in gene regulatory networks

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