This is a tibble that contains mappings between ensembl gene id's and reactome pathways. The reactome pathways are from the lowest level in the hierarchy ("Lowest level pathway diagram / Subset of the pathway"), and were obtained by download from the Reactome website (https://reactome.org/download-data; "ENSEMBL to pathways"). The following commands were used: wget https://reactome.org/download/current/Ensembl2Reactome.txt; cat Ensembl2Reactome.txt | grep "Homo sapiens" > Ensembl2Reactome_homo_sapiens.txt
A tibble with 46'141 rows and six variables:
the Ensembl gene id as a character
the Reactome pathway stable identifier
The url leading to the pathway graph
the name of the Reactome pathway
the evidence code
The tibble was created as follows: library(dplyr); ensg_path_map_raw <- read.csv("Ensembl2Reactome_homo_sapiens.txt", header = F, sep = "\t", comment.char = "", check.names = F, skip = 0); stopifnot(dim(ensg_path_map_raw) == 46141); stopifnot(dim(ensg_path_map_raw) == 6); colnames(ensg_path_map_raw) <- c("ensembl_gene_id", "reactome_pw_id", "url", "reactome_pw_name", "evidence_code", "species"); ensg_path_map_raw <- dplyr::as.tbl(ensg_path_map_raw); ensg_reactome_path_map <- filter(filter(ensg_path_map_raw, grepl("ENSG", ensg_path_map_raw$ensembl_gene_id)), species == "Homo sapiens")
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