Bipartite Graphs for Visualization Analysis of Microbiome Data

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dc.contributor.authorSedlář, Karelcs
dc.contributor.authorVídeňská, Petracs
dc.contributor.authorŠkutková, Helenacs
dc.contributor.authorRychlík, Ivancs
dc.contributor.authorProvazník, Ivocs
dc.coverage.issueS1cs
dc.coverage.volume12cs
dc.date.accessioned2020-08-04T11:00:14Z
dc.date.available2020-08-04T11:00:14Z
dc.date.issued2016-05-31cs
dc.description.abstractVisualization analysis plays an important role in metagenomics research. Proper and clear visualization can help researchers get their first insights into data and by selecting different features, also revealing and highlighting hidden relationships and drawing conclusions. To prevent the resulting presentations from becoming chaotic, visualization techniques have to properly tackle the high dimensionality of microbiome data. Although a number of different methods based on dimensionality reduction, correlations, Venn diagrams, and network representations have already been published, there is still room for further improvement, especially in the techniques that allow visual comparison of several environments or developmental stages in one environment. In this article, we represent microbiome data by bipartite graphs, where one partition stands for taxa and the other stands for samples. We demonstrated that community detection is independent of taxonomical level. Moreover, focusing on higher taxonomical levels and the appropriate merging of samples greatly helps improving graph organization and makes our presentations clearer than other graph and network visualizations. Capturing labels in the vertices also brings the possibility of clearly comparing two or more microbial communities by showing their common and unique parts.en
dc.formattextcs
dc.format.extent17-23cs
dc.format.mimetypeapplication/pdfcs
dc.identifier.citationEVOLUTIONARY BIOINFORMATICS. 2016, vol. 12, issue S1, p. 17-23.en
dc.identifier.doi10.4137/EBO.S38546cs
dc.identifier.issn1176-9343cs
dc.identifier.other125530cs
dc.identifier.urihttp://hdl.handle.net/11012/60591
dc.language.isoencs
dc.publisherLibertas Academicacs
dc.relation.ispartofEVOLUTIONARY BIOINFORMATICScs
dc.relation.urihttps://doi.org/10.4137/EBO.S38546cs
dc.rightsCreative Commons Attribution-NonCommercial 3.0 Unportedcs
dc.rights.accessopenAccesscs
dc.rights.sherpahttp://www.sherpa.ac.uk/romeo/issn/1176-9343/cs
dc.rights.urihttp://creativecommons.org/licenses/by-nc/3.0/cs
dc.subjectmetagenomicsen
dc.subjectOTU tableen
dc.subject16S rRNAen
dc.subjectbipartite graphen
dc.subjectvisualization analysisen
dc.subjectgraph modularityen
dc.titleBipartite Graphs for Visualization Analysis of Microbiome Dataen
dc.type.driverarticleen
dc.type.statusPeer-revieweden
dc.type.versionpublishedVersionen
sync.item.dbidVAV-125530en
sync.item.dbtypeVAVen
sync.item.insts2020.08.04 13:00:14en
sync.item.modts2020.08.04 12:31:29en
thesis.grantorVysoké učení technické v Brně. Fakulta elektrotechniky a komunikačních technologií. Ústav biomedicínského inženýrstvícs
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