Search for disease EFO identifiers — searchDisease • MIRit

This function allows to retrieve the Experimental Factor Ontology (EFO) identifier of a particular disease. This ID is then needed to use the function findMirnaSNPs().

Usage

searchDisease(diseaseName)

Arguments

diseaseName: The name of a particular disease (ex. Alzheimer disease).

Value

A character object containing EFO identifiers.

Note

To retrieve EFO IDs for specific diseases, this function makes use of the gwasrapidd package.

References

Ramiro Magno, Ana-Teresa Maia, gwasrapidd: an R package to query, download and wrangle GWAS catalog data, Bioinformatics, Volume 36, Issue 2, January 2020, Pages 649–650, https://doi.org/10.1093/bioinformatics/btz605.

Author

Jacopo Ronchi, jacopo.ronchi@unimib.it

Examples

# \donttest{
# search the EFO identifier of Alzheimer disease
searchDisease("Alzheimer disease")
#> Checking for cached EFO traits...
#> Reading EFO traits from cache...
#> Searching for disease: Alzheimer disease
#> [1] "Alzheimer's disease biomarker measurement" 
#> [2] "Alzheimer's disease neuropathologic change"
#> [3] "Alzheimer disease"                         
#> [4] "late-onset Alzheimer's disease"            
#> [5] "family history of Alzheimer’s disease"     
#> [6] "age of onset of Alzheimer disease"         
# }