Visualization and analysis of microarray and gene ontology data with treemaps

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dc.contributor.authorBaehrecke, Eric H
dc.contributor.authorDang, Niem
dc.contributor.authorBabaria, Ketan
dc.contributor.authorShneiderman, Ben
dc.date.accessioned2021-12-09T16:05:16Z
dc.date.available2021-12-09T16:05:16Z
dc.date.issued2004-06-28
dc.description.abstractThe increasing complexity of genomic data presents several challenges for biologists. Limited computer monitor views of data complexity and the dynamic nature of data in the midst of discovery increase the challenge of integrating experimental results with information resources. The use of Gene Ontology enables researchers to summarize results of quantitative analyses in this framework, but the limitations of typical browser presentation restrict data access. Here we describe extensions to the treemap design to visualize and query genome data. Treemaps are a space-filling visualization technique for hierarchical structures that show attributes of leaf nodes by size and color-coding. Treemaps enable users to rapidly compare sizes of nodes and sub-trees, and we use Gene Ontology categories, levels of RNA, and other quantitative attributes of DNA microarray experiments as examples. Our implementation of treemaps, Treemap 4.0, allows user-defined filtering to focus on the data of greatest interest, and these queried files can be exported for secondary analyses. Links to model system web pages from Treemap 4.0 enable users access to details about specific genes without leaving the query platform. Treemaps allow users to view and query the data from an experiment on a single computer monitor screen. Treemap 4.0 can be used to visualize various genome data, and is particularly useful for revealing patterns and details within complex data sets.en_US
dc.description.urihttps://doi.org/10.1186/1471-2105-5-84
dc.identifierhttps://doi.org/10.13016/xzka-isj2
dc.identifier.citationBaehrecke, E.H., Dang, N., Babaria, K. et al. Visualization and analysis of microarray and gene ontology data with treemaps. BMC Bioinformatics 5, 84 (2004).en_US
dc.identifier.urihttp://hdl.handle.net/1903/28230
dc.language.isoen_USen_US
dc.publisherSpringer Natureen_US
dc.relation.isAvailableAtCollege of Computer, Mathematical & Physical Sciencesen_us
dc.relation.isAvailableAtDigital Repository at the University of Marylanden_us
dc.relation.isAvailableAtBiologyen_us
dc.relation.isAvailableAtUniversity of Maryland (College Park, MD)en_us
dc.subjectGene Ontologyen_US
dc.subjectSalivary Glanden_US
dc.subjectControl Panelen_US
dc.subjectGene Nodeen_US
dc.subjectQuantitative Attributeen_US
dc.titleVisualization and analysis of microarray and gene ontology data with treemapsen_US
dc.typeArticleen_US

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