biomaRt, Ensembl, adding new "phenotype_source"
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Entering edit mode
Hector • 0
@cb263444
Last seen 6 weeks ago
United States

Hi all,

After loading Ensembl human genes dataset and listing ‘phenotype_source”:

library(biomaRt)
ensembl <- useEnsembl(biomart = "ensembl", dataset = "hsapiens_gene_ensembl")
listFilterOptions(mart = ensembl, filter = "phenotype_source")

It shows three sources:

[1] "DDG2P"      "MIM morbid" "Orphanet"

Ensembl website is also using “Cancer Gene Census” as a source (example: https://useast.ensembl.org/Homo_sapiens/Gene/Phenotype?db=core;g=ENSG00000141510;r=17:7661779-7687538)

Is it possible to add “Cancer Gene Census” to “phenotype_source” in biomaRt? )

Thank you,

Hector

biomaRt • 102 views
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