This function will retrieve the full Events hierarchy of your supplied species. Directly under each species, each child element is a "top Level Pathway". You can traverse the events tree down by following the "children" element.

rba_reactome_event_hierarchy(species, ...)

Arguments

species

Numeric or Character: NCBI Taxonomy identifier (Human Taxonomy ID is 9606.) or species name (e.g. "Homo sapiens"). See rba_reactome_species or Reactome Data Schema: Entries: Species.

...

rbioapi option(s). See rba_options's arguments manual for more information on available options.

Value

List which is a representation of the species's events hierarchy described in the "Details section".

Details

By Reactome's definition, Events are the building blocks of biological processes and could be of two main classes: "Pathway" or "Reaction-like events". The events are organized in a hierarchical structure; and each event could be child or parent to another event; The hierarchy will always begin with a "Top level pathway" event. Also note that a given event could be part of more that one hierarchies.

Corresponding API Resources

"GET https://reactome.org/ContentService/data/eventsHierarchy/species"

References

  • Jassal B, Matthews L, Viteri G, Gong C, Lorente P, Fabregat A, Sidiropoulos K, Cook J, Gillespie M, Haw R, Loney F, May B, Milacic M, Rothfels K, Sevilla C, Shamovsky V, Shorser S, Varusai T, Weiser J, Wu G, Stein L, Hermjakob H, D'Eustachio P. The reactome pathway knowledgebase. Nucleic Acids Res. 2020 Jan 8;48(D1):D498-D503. doi: 10.1093/nar/gkz1031. PubMed PMID: 31691815.

  • Reactome Content Services API Documentation

See also

Other "Reactome Content Service - Queries Related to Events": rba_reactome_event_ancestors()

Examples

# \donttest{
rba_reactome_event_hierarchy("Homo sapiens")
# }
# \donttest{
rba_reactome_event_hierarchy(9606)
# }