VisExpress : Visual exploration of differential gene expression data

Lade...
Vorschaubild
Dateien
Simon_0-312302.pdf
Simon_0-312302.pdfGröße: 8.7 MBDownloads: 319
Datum
2017
Autor:innen
Landstorfer, Richard
Neuhaus, Klaus
Mühlig, Anna
Scherer, Siegfried
Herausgeber:innen
Kontakt
ISSN der Zeitschrift
Electronic ISSN
ISBN
Bibliografische Daten
Verlag
Schriftenreihe
Auflagebezeichnung
ArXiv-ID
Internationale Patentnummer
Angaben zur Forschungsförderung
Projekt
Open Access-Veröffentlichung
Open Access Green
Core Facility der Universität Konstanz
Gesperrt bis
Titel in einer weiteren Sprache
Forschungsvorhaben
Organisationseinheiten
Zeitschriftenheft
Publikationstyp
Zeitschriftenartikel
Publikationsstatus
Published
Erschienen in
Zusammenfassung

Biologists are keen to understand how processes in cells react to environmental changes. Differential gene expression analysis allows biologists to explore functions of genes with data generated from different environments. However, these data and analysis lead to unique challenges since tasks are ill-defined, require implicit domain knowledge, comprise large volumes of data, and are, therefore, of explanatory nature. To investigate a scalable visualization-based solution, we conducted a design study with three biologists specialized in differential gene expression analysis. We stress our contributions in three aspects: first, we characterize the problem domain for exploring differential gene expression data and derive task abstractions and design requirements. Second, we investigate the design space and present an interactive visualization system, called VisExpress. Third, we evaluate the usefulness of VisExpress via a Pair Analytics study with real users and real data and report on insights that were gained by our experts with VisExpress.

Zusammenfassung in einer weiteren Sprache
Fachgebiet (DDC)
004 Informatik
Schlagwörter
Information visualization, design study, bioinformatics visualization, interactive visual exploration, biological data, expression data, gene expression profiling, differential gene expression
Konferenz
Rezension
undefined / . - undefined, undefined
Zitieren
ISO 690SIMON, Svenja, Sebastian MITTELSTÄDT, Bum Chul KWON, Andreas STOFFEL, Richard LANDSTORFER, Klaus NEUHAUS, Anna MÜHLIG, Siegfried SCHERER, Daniel A. KEIM, 2017. VisExpress : Visual exploration of differential gene expression data. In: Information Visualization. 2017, 16(1), pp. 48-73. ISSN 1473-8716. eISSN 1473-8724. Available under: doi: 10.1177/1473871615612883
BibTex
@article{Simon2017-01VisEx-32512,
  year={2017},
  doi={10.1177/1473871615612883},
  title={VisExpress : Visual exploration of differential gene expression data},
  number={1},
  volume={16},
  issn={1473-8716},
  journal={Information Visualization},
  pages={48--73},
  author={Simon, Svenja and Mittelstädt, Sebastian and Kwon, Bum Chul and Stoffel, Andreas and Landstorfer, Richard and Neuhaus, Klaus and Mühlig, Anna and Scherer, Siegfried and Keim, Daniel A.}
}
RDF
<rdf:RDF
    xmlns:dcterms="http://purl.org/dc/terms/"
    xmlns:dc="http://purl.org/dc/elements/1.1/"
    xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#"
    xmlns:bibo="http://purl.org/ontology/bibo/"
    xmlns:dspace="http://digital-repositories.org/ontologies/dspace/0.1.0#"
    xmlns:foaf="http://xmlns.com/foaf/0.1/"
    xmlns:void="http://rdfs.org/ns/void#"
    xmlns:xsd="http://www.w3.org/2001/XMLSchema#" > 
  <rdf:Description rdf:about="https://kops.uni-konstanz.de/server/rdf/resource/123456789/32512">
    <dcterms:abstract xml:lang="eng">Biologists are keen to understand how processes in cells react to environmental changes. Differential gene expression analysis allows biologists to explore functions of genes with data generated from different environments. However, these data and analysis lead to unique challenges since tasks are ill-defined, require implicit domain knowledge, comprise large volumes of data, and are, therefore, of explanatory nature. To investigate a scalable visualization-based solution, we conducted a design study with three biologists specialized in differential gene expression analysis. We stress our contributions in three aspects: first, we characterize the problem domain for exploring differential gene expression data and derive task abstractions and design requirements. Second, we investigate the design space and present an interactive visualization system, called VisExpress. Third, we evaluate the usefulness of VisExpress via a Pair Analytics study with real users and real data and report on insights that were gained by our experts with VisExpress.</dcterms:abstract>
    <dc:contributor>Scherer, Siegfried</dc:contributor>
    <dc:creator>Keim, Daniel A.</dc:creator>
    <dc:language>eng</dc:language>
    <dc:creator>Simon, Svenja</dc:creator>
    <dcterms:available rdf:datatype="http://www.w3.org/2001/XMLSchema#dateTime">2016-01-07T14:10:45Z</dcterms:available>
    <dc:rights>terms-of-use</dc:rights>
    <dc:contributor>Stoffel, Andreas</dc:contributor>
    <dc:contributor>Simon, Svenja</dc:contributor>
    <dc:contributor>Mittelstädt, Sebastian</dc:contributor>
    <dspace:hasBitstream rdf:resource="https://kops.uni-konstanz.de/bitstream/123456789/32512/1/Simon_0-312302.pdf"/>
    <dc:creator>Landstorfer, Richard</dc:creator>
    <dcterms:rights rdf:resource="https://rightsstatements.org/page/InC/1.0/"/>
    <dspace:isPartOfCollection rdf:resource="https://kops.uni-konstanz.de/server/rdf/resource/123456789/36"/>
    <void:sparqlEndpoint rdf:resource="http://localhost/fuseki/dspace/sparql"/>
    <dc:creator>Stoffel, Andreas</dc:creator>
    <dc:creator>Mühlig, Anna</dc:creator>
    <dc:contributor>Landstorfer, Richard</dc:contributor>
    <dc:contributor>Mühlig, Anna</dc:contributor>
    <bibo:uri rdf:resource="https://kops.uni-konstanz.de/handle/123456789/32512"/>
    <foaf:homepage rdf:resource="http://localhost:8080/"/>
    <dcterms:isPartOf rdf:resource="https://kops.uni-konstanz.de/server/rdf/resource/123456789/36"/>
    <dc:contributor>Kwon, Bum Chul</dc:contributor>
    <dc:contributor>Neuhaus, Klaus</dc:contributor>
    <dc:date rdf:datatype="http://www.w3.org/2001/XMLSchema#dateTime">2016-01-07T14:10:45Z</dc:date>
    <dc:creator>Mittelstädt, Sebastian</dc:creator>
    <dc:creator>Scherer, Siegfried</dc:creator>
    <dcterms:issued>2017-01</dcterms:issued>
    <dc:contributor>Keim, Daniel A.</dc:contributor>
    <dcterms:hasPart rdf:resource="https://kops.uni-konstanz.de/bitstream/123456789/32512/1/Simon_0-312302.pdf"/>
    <dc:creator>Kwon, Bum Chul</dc:creator>
    <dc:creator>Neuhaus, Klaus</dc:creator>
    <dcterms:title>VisExpress : Visual exploration of differential gene expression data</dcterms:title>
  </rdf:Description>
</rdf:RDF>
Interner Vermerk
xmlui.Submission.submit.DescribeStep.inputForms.label.kops_note_fromSubmitter
Kontakt
URL der Originalveröffentl.
Prüfdatum der URL
Prüfungsdatum der Dissertation
Finanzierungsart
Kommentar zur Publikation
Allianzlizenz
Corresponding Authors der Uni Konstanz vorhanden
Internationale Co-Autor:innen
Universitätsbibliographie
Ja
Begutachtet
Diese Publikation teilen