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OntoloViz: a GUI for interactive visualization of ranked disease or drug lists using the MeSH and ATC ontologies.
Ley, Matthias; Heinzel, Andreas; Fillinger, Lucas; Kratochwill, Klaus; Perco, Paul.
Afiliación
  • Ley M; Computational Biology Department, Delta4 GmbH, Vienna 1080, Austria.
  • Heinzel A; Division of Pediatric Nephrology and Gastroenterology, Department of Pediatrics and Adolescent Medicine, Comprehensive Center for Pediatrics, Medical University Vienna, Vienna 1090, Austria.
  • Fillinger L; Computational Biology Department, Delta4 GmbH, Vienna 1080, Austria.
  • Kratochwill K; Department of Internal Medicine III, Medical University Vienna, Vienna 1090, Austria.
  • Perco P; Computational Biology Department, Delta4 GmbH, Vienna 1080, Austria.
Bioinform Adv ; 3(1): vbad113, 2023.
Article en En | MEDLINE | ID: mdl-38496343
ABSTRACT
Motivation Structured vocabularies for drugs and diseases represent, besides their primary use for annotating scientific literature or scientific information in general, a valuable resource for visualizing aggregated information. The Medical Subject Headings (MeSH) and Anatomical Therapeutic Chemical (ATC) ontologies are widely used structured vocabularies for diseases and drugs, respectively. Their hierarchical tree-like structure can be used as a basis for creating intuitive visual displays for specific diseases and drugs within their higher-order classifications. Such displays are helpful means to contextualize diseases and drugs in various settings such as in drug repositioning. However, there are few tools that can harness the potential of these structured ontologies to create informative visual representations without extensive programming and data processing skills.

Results:

We have developed OntoloViz, a Graphical User Interface (GUI) for visualizing annotated lists of drugs or diseases in the context of their MeSH or ATC ontologies in an intuitively interpretable sunburst layout. Minimum input is a list of disease or drug names. Users in addition have the option to specify numerical parameters for the input lists to enhance the visualization, e.g. to visualize term frequencies. The GUI allows values to be propagated upwards in the respective ontology tree structure thus facilitating exploration of gene and drug lists. We present two use cases for OntoloViz, namely (i) a graphical representation of clinically tested drugs for coronavirus disease (COVID-19) based on ATC Classification and (ii) a graphical representation of literature annotation of human diseases on the MeSH ontology. Availability and implementation The OntoloViz package can be retrieved from PyPi. The source code along with test data, template, and documentations are available at GitHub (https//github.com/Delta4AI/OntoloViz).
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Texto completo: 1 Colección: 01-internacional Base de datos: MEDLINE Idioma: En Revista: Bioinform Adv Año: 2023 Tipo del documento: Article País de afiliación: Austria Pais de publicación: Reino Unido
Texto completo
Añadir a Mi BVS
Imprimir
XML
PubMed Links
Buscar en Google

Texto completo: 1 Colección: 01-internacional Base de datos: MEDLINE Idioma: En Revista: Bioinform Adv Año: 2023 Tipo del documento: Article País de afiliación: Austria Pais de publicación: Reino Unido