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This function Retrieve a list of all diseases or disease DOIDs annotated in Reactome.

Usage

rba_reactome_diseases(doid = FALSE, ...)

Arguments

doid

(logical) Return disease DOIDs instead of diseases? (default = FALSE)

...

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

Value

Data frame containing all the disease annotation available at Reactome. If doid was set to TRUE, DOID info will be returned instead.

Corresponding API Resources

"GET https://reactome.org/ContentService/GET data/diseases" "GET https://reactome.org/ContentService/GET data/diseases/doid"

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

Examples

# \donttest{
rba_reactome_diseases()
# }
# \donttest{
rba_reactome_diseases(doid = TRUE)
# }