rba_reactome_interactors_static {rbioapi}R Documentation

Get Static(IntAct) Interaction Information of a Protein

Description

Reactome maintain a locally host a version of IntAct(Static) interactions database. Using this function, you can retrieve IntAct information of a protein(s) in two scenarios:

  1. If endpoint = "details" or "summary": Retrieve a detailed/summary information of your supplied protein accession(s) from IntAct database.

  2. If endpoint = "pathway", Retrieve a list of Reactome pathways which include your supplied protein accession. Pathways with the class "TopLevelPathway" will be excluded.

Usage

rba_reactome_interactors_static(
  proteins,
  endpoint = "details",
  only_diagrammed = FALSE,
  species = NULL,
  ...
)

Arguments

proteins

Uniprot proteins accession(s). If endpoint = "pathway", only a single protein accession can be supplied.

endpoint

Can be one of:

  1. "details": To return a detailed information of your supplied protein(s) accession.

  2. "summary": To return a summary of your supplied protein(s) accession

  3. "pathway": To return a list of pathways containing the interacting molecules (excluding TopLevelPathway class).

only_diagrammed

Logical: (only when "endpoint = "pathway") If TRUE, pathways without diagram will be excluded. (default = FALSE)

species

Only when "endpoint = "pathway", The scientific name of the species to search for the pathways. 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 it's content varies based on the supplied "endpoint" argument.

Corresponding API Resources

"POST https://reactome.org/ContentService/interactors/static/ molecules/details"
"POST https://reactome.org/ContentService/interactors/static/ molecules/summary"
"GET https://reactome.org/ContentService/interactors/static/ molecules/pathways"

References

See Also

Other "Reactome Content Service - Molecule Interactors": rba_reactome_interactors_psicquic()

Examples


rba_reactome_interactors_static(proteins = "Q9BXM7-1",
    endpoint = "pathways", species = "Homo sapiens")


rba_reactome_interactors_static(proteins = c("Q9BXM7-1", "Q13501"),
    endpoint = "details")


rba_reactome_interactors_static(proteins = c("Q9BXM7-1", "Q13501"),
    endpoint = "summary")



[Package rbioapi version 0.8.1 Index]