Get Top Level Pathways in a Species
This function will Return a list of all pathways with the class "TopLevelPathway" which are annotated in your provided species.
rba_reactome_pathways_top(species, ...)
species |
Numeric or Character: NCBI Taxonomy identifier (Human Taxonomy
ID is 9606.) or species name (e.g. "Homo sapiens"). Refer to
|
... |
rbioapi option(s). Refer to |
Reactome's Events hierarchy for any specie will begin with pathways with class "TopLevelPathway" (e.g. "Immune System", "Metabolism of proteins"). further down in the event's hierarchy tree, each TopLevelPathway has has other events itself (e.g. "Adaptive immune system", "Innate immune system"). Based on the chosen pathway, the hierarchy tree would typically goes further down.
Data frame where each row is a Top Level Pathway and columns are pertinent information.
"GET https://reactome.org/ContentService/data/pathways/top/species"
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.
Other "Reactome Content Service - Pathway Related Queries":
rba_reactome_pathways_events(),
rba_reactome_pathways_low()
rba_reactome_pathways_top(species = 9606) rba_reactome_pathways_top(species = "Saccharomyces cerevisiae")
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