Hepitopes Database Case Study

Hepitopes is a project to collate all the existing HBV epitopes restricted by HLA Class I genes, and to develop this into a live on-line resource that can grow and develop over time. This case study utilises a Google Sheet to populate an interactive datatable within a Shiny application, additional bioscience visualisations will be added in the future.

Hepitopes collates all existing Class I restricted HBV epitopes into an interactive online resource that will grow and develop over time.

These visualisations were built using R and Shiny, here's a basic overview of what Shiny is.

Dr. Philippa Matthews approached the IT Research Suppot team for advice in how an interactive database of hepitopes could be developed such that it could be cited in a paper and continue to be updated as more data is collected. A Shiny app connected to a versionable data deposit on Figshare proved to be an excellent fit for this use case.

The Shiny app makes use of the following visualisations:

  • Interactive tables - useful for interactively exploring datasets.

To replicate this interactive visualisation for yourself, refer to the IDN Shiny app template or else fork the actual code for the shiny app here. You an also contact the IDN on researchsupport@it.ox.ac.uk

Case Study Details

Academic Dr. Philippa Matthews (https://orcid.org/0000-0002-4036-4269)
Department

Nuffield Department of Medicine

Divison Medical Sciences
Where is visualisation used? https://www.expmedndm.ox.ac.uk/hepitopes
Data Source https://doi.org/10.6084/m9.figshare.4015824
Link(s) to code https://doi.org/10.6084/m9.figshare.5558644
Developer Martin Hadley (http://orcid.org/0000-0002-3039-6849)
List of site pages