rbioapi (version 0.8.2)

rba_reactome_interactors_psicquic: The interface From Reactome to PSICQUIC

Description

You can call this function in two scenarios: 1- To retrieve information of all available PSICQUIC resources, call the function without providing any argument; i.e rba_reactome_interactors_psicquic(). 2-To retrieve a list of interactors of specific protein(s), fill out the function's arguments.

Usage

rba_reactome_interactors_psicquic(
  proteins = NULL,
  resource = NULL,
  details = TRUE,
  ...
)

Value

Depending your input, a list containing the detailed or summary of PSICQUIC interactions or a data frame of all registered PSICQUIC resources.

Arguments

proteins

Proteins to retrieve PSICQUIC interactors.

resource

The PSICQUIC resource for your supplied proteins. Call rba_reactome_interactors_psicquic() without argument to get the available options.

details

Logical: If TRUE (default) a detailed list of interactors will be returned. If FALSE, only a summary of available interactors will be returned.

...

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

Corresponding API Resources

"POST https://reactome.org/ContentService/interactors/psicquic/molecules/ {resource}/details"
"POST https://reactome.org/ContentService/interactors/psicquic/molecules/ {resource}/summary"
"GET https://reactome.org/ContentService/interactors/psicquic/resources"

References

• Marc Gillespie, Bijay Jassal, Ralf Stephan, Marija Milacic, Karen Rothfels, Andrea Senff-Ribeiro, Johannes Griss, Cristoffer Sevilla, Lisa Matthews, Chuqiao Gong, Chuan Deng, Thawfeek Varusai, Eliot Ragueneau, Yusra Haider, Bruce May, Veronica Shamovsky, Joel Weiser, Timothy Brunson, Nasim Sanati, Liam Beckman, Xiang Shao, Antonio Fabregat, Konstantinos Sidiropoulos, Julieth Murillo, Guilherme Viteri, Justin Cook, Solomon Shorser, Gary Bader, Emek Demir, Chris Sander, Robin Haw, Guanming Wu, Lincoln Stein, Henning Hermjakob, Peter D’Eustachio, The reactome pathway knowledgebase 2022, Nucleic Acids Research, 2021;, kab1028, https://doi.org/10.1093/nar/gkab1028

• Griss J, Viteri G, Sidiropoulos K, Nguyen V, Fabregat A, Hermjakob H. ReactomeGSA - Efficient Multi-Omics Comparative Pathway Analysis. Mol Cell Proteomics. 2020 Sep 9. doi: 10.1074/mcp. PubMed PMID: 32907876.

• Reactome Content Services API Documentation

• Citations note on Reactome website

See Also

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

Examples

# \donttest{
rba_reactome_interactors_psicquic()
# }
# \donttest{
rba_reactome_interactors_psicquic(proteins = c("TP53", "MYC"),
    resource = "BioGrid",
    details = FALSE)
# }
# \donttest{
rba_reactome_interactors_psicquic(proteins = c("TP53", "MYC"),
    resource = "BioGrid",
    details = TRUE)
# }