Obtain CORUM protein complex data

Functionality for retrieving the CORUM protein complex data. Available complex collections include:

• complete set of complexes,

• core set of complexes,

• complexes with splice variants.

See references.

getCorum(
  set = c("all", "core", "splice"),
  organism = "Human",
  remap.uniprot.ids = FALSE,
  cache = TRUE
)

Arguments

set

character. Valid options include:

• "all": complete set of complexes,

• "core": core set of complexes,

• "splice": complexes with splice variants.

Defaults to "all".

organism

character. Use NULL to not subset by organism. Defaults to "Human" which restricts the data to human protein complexes only.

remap.uniprot.ids

logical. Should the protein-to-gene mappings from CORUM (i.e. UNIPROT-to-SYMBOL and UNIPROT-to-ENTREZID) be updated using Bioc annotation functionality? Currently only supported in combination with organism = "Human". Defaults to FALSE which will then keep the mappings provided by CORUM.

cache

logical. Should a locally cached version used if available? Defaults to TRUE.

Value

A data.frame.

References

CORUM: http://mips.helmholtz-muenchen.de/corum/#download

Examples

# Obtain the core set of CORUM complexes
core <- getCorum(set = "core")
#> Using cached version from 2023-02-26 15:10:34