Literature DB >> 19641637

Visualizing Set Concordance with Permutation Matrices and Fan Diagrams.

Bohyoung Kim1, Bongshin Lee, Jinwook Seo.   

Abstract

Scientific problem solving often involves concordance (or discordance) analysis among the result sets from different approaches. For example, different scientific analysis methods with the same samples often lead to different or even conflicting conclusions. To reach a more judicious conclusion, it is crucial to consider different perspectives by checking concordance among those result sets by different methods. In this paper, we present an interactive visualization tool called ConSet, where users can effectively examine relationships among multiple sets at once. ConSet provides an overview using an improved permutation matrix to enable users to easily identify relationships among sets with a large number of elements. Not only do we use a standard Venn diagram, we also introduce a new diagram called Fan diagram that allows users to compare two or three sets without any inconsistencies that may exist in Venn diagrams. A qualitative user study was conducted to evaluate how our tool works in comparison with a traditional set visualization tool based on a Venn diagram. We observed that ConSet enabled users to complete more tasks with fewer errors than the traditional interface did and most users preferred ConSet.

Entities:  

Year:  2007        PMID: 19641637      PMCID: PMC2717505          DOI: 10.1016/j.intcom.2007.05.004

Source DB:  PubMed          Journal:  Interact Comput        ISSN: 0953-5438            Impact factor:   1.174


  5 in total

1.  Generalized Venn diagrams: a new method of visualizing complex genetic set relations.

Authors:  Hans A Kestler; André Müller; Thomas M Gress; Malte Buchholz
Journal:  Bioinformatics       Date:  2004-11-30       Impact factor: 6.937

2.  MatrixExplorer: a dual-representation system to explore social networks.

Authors:  Nathalie Henry; Jean-Daniel Fekete
Journal:  IEEE Trans Vis Comput Graph       Date:  2006 Sep-Oct       Impact factor: 4.579

3.  An interactive power analysis tool for microarray hypothesis testing and generation.

Authors:  Jinwook Seo; Heather Gordish-Dressman; Eric P Hoffman
Journal:  Bioinformatics       Date:  2006-01-17       Impact factor: 6.937

4.  Cluster analysis and display of genome-wide expression patterns.

Authors:  M B Eisen; P T Spellman; P O Brown; D Botstein
Journal:  Proc Natl Acad Sci U S A       Date:  1998-12-08       Impact factor: 11.205

5.  GoMiner: a resource for biological interpretation of genomic and proteomic data.

Authors:  Barry R Zeeberg; Weimin Feng; Geoffrey Wang; May D Wang; Anthony T Fojo; Margot Sunshine; Sudarshan Narasimhan; David W Kane; William C Reinhold; Samir Lababidi; Kimberly J Bussey; Joseph Riss; J Carl Barrett; John N Weinstein
Journal:  Genome Biol       Date:  2003-03-25       Impact factor: 13.583

  5 in total
  5 in total

1.  UpSet: Visualization of Intersecting Sets.

Authors:  Alexander Lex; Nils Gehlenborg; Hendrik Strobelt; Romain Vuillemot; Hanspeter Pfister
Journal:  IEEE Trans Vis Comput Graph       Date:  2014-12       Impact factor: 4.579

2.  VennDiagram: a package for the generation of highly-customizable Venn and Euler diagrams in R.

Authors:  Hanbo Chen; Paul C Boutros
Journal:  BMC Bioinformatics       Date:  2011-01-26       Impact factor: 3.307

3.  Co-existence of BRAF and NRAS driver mutations in the same melanoma cells results in heterogeneity of targeted therapy resistance.

Authors:  Marieke I G Raaijmakers; Daniel S Widmer; Apurva Narechania; Ossia Eichhoff; Sandra N Freiberger; Judith Wenzina; Phil F Cheng; Daniela Mihic-Probst; Rob Desalle; Reinhard Dummer; Mitchell P Levesque
Journal:  Oncotarget       Date:  2016-11-22

4.  Pan-Tetris: an interactive visualisation for Pan-genomes.

Authors:  André Hennig; Jörg Bernhardt; Kay Nieselt
Journal:  BMC Bioinformatics       Date:  2015-08-13       Impact factor: 3.169

5.  eulerAPE: drawing area-proportional 3-Venn diagrams using ellipses.

Authors:  Luana Micallef; Peter Rodgers
Journal:  PLoS One       Date:  2014-07-17       Impact factor: 3.240

  5 in total

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