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CoVennTree: a new method for the comparative analysis of large datasets

The visualization of massive datasets, such as those resulting from comparative metatranscriptome analyses or the analysis of microbial population structures using ribosomal RNA sequences, is a challenging task. We developed a new method called CoVennTree (Comparative weighted Venn Tree) that simult...

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Autores principales: Lott, Steffen C., Voß, Björn, Hess, Wolfgang R., Steglich, Claudia
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Frontiers Media S.A. 2015
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4335276/
https://www.ncbi.nlm.nih.gov/pubmed/25750651
http://dx.doi.org/10.3389/fgene.2015.00043
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author Lott, Steffen C.
Voß, Björn
Hess, Wolfgang R.
Steglich, Claudia
author_facet Lott, Steffen C.
Voß, Björn
Hess, Wolfgang R.
Steglich, Claudia
author_sort Lott, Steffen C.
collection PubMed
description The visualization of massive datasets, such as those resulting from comparative metatranscriptome analyses or the analysis of microbial population structures using ribosomal RNA sequences, is a challenging task. We developed a new method called CoVennTree (Comparative weighted Venn Tree) that simultaneously compares up to three multifarious datasets by aggregating and propagating information from the bottom to the top level and produces a graphical output in Cytoscape. With the introduction of weighted Venn structures, the contents and relationships of various datasets can be correlated and simultaneously aggregated without losing information. We demonstrate the suitability of this approach using a dataset of 16S rDNA sequences obtained from microbial populations at three different depths of the Gulf of Aqaba in the Red Sea. CoVennTree has been integrated into the Galaxy ToolShed and can be directly downloaded and integrated into the user instance.
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spelling pubmed-43352762015-03-06 CoVennTree: a new method for the comparative analysis of large datasets Lott, Steffen C. Voß, Björn Hess, Wolfgang R. Steglich, Claudia Front Genet Genetics The visualization of massive datasets, such as those resulting from comparative metatranscriptome analyses or the analysis of microbial population structures using ribosomal RNA sequences, is a challenging task. We developed a new method called CoVennTree (Comparative weighted Venn Tree) that simultaneously compares up to three multifarious datasets by aggregating and propagating information from the bottom to the top level and produces a graphical output in Cytoscape. With the introduction of weighted Venn structures, the contents and relationships of various datasets can be correlated and simultaneously aggregated without losing information. We demonstrate the suitability of this approach using a dataset of 16S rDNA sequences obtained from microbial populations at three different depths of the Gulf of Aqaba in the Red Sea. CoVennTree has been integrated into the Galaxy ToolShed and can be directly downloaded and integrated into the user instance. Frontiers Media S.A. 2015-02-20 /pmc/articles/PMC4335276/ /pubmed/25750651 http://dx.doi.org/10.3389/fgene.2015.00043 Text en Copyright © 2015 Lott, Voß, Hess and Steglich. http://creativecommons.org/licenses/by/4.0/ This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) or licensor are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.
spellingShingle Genetics
Lott, Steffen C.
Voß, Björn
Hess, Wolfgang R.
Steglich, Claudia
CoVennTree: a new method for the comparative analysis of large datasets
title CoVennTree: a new method for the comparative analysis of large datasets
title_full CoVennTree: a new method for the comparative analysis of large datasets
title_fullStr CoVennTree: a new method for the comparative analysis of large datasets
title_full_unstemmed CoVennTree: a new method for the comparative analysis of large datasets
title_short CoVennTree: a new method for the comparative analysis of large datasets
title_sort covenntree: a new method for the comparative analysis of large datasets
topic Genetics
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4335276/
https://www.ncbi.nlm.nih.gov/pubmed/25750651
http://dx.doi.org/10.3389/fgene.2015.00043
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