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Fetch Protein-protein interaction for given gene IDs from Hit Predict database

searchHP.Rd

This function searches the Hitpredict database to retrieve the Experimental Protein-Protein Interaction data.

Usage

searchHP(geneID, taxid = "36329", uniprotToGID = TRUE)

Arguments

geneID

Single gene ID.

taxid

Taxon ID of the organism of interest. Default: 36329.

uniprotToGID

To convert Uniprot ID to gene ID. Set TRUE for Plasmodium geneIDs only.

Value

A data frame, containing 11 columns: "Interaction", "Interactor", "Name", "Experiments", "Category", "Method.Score", "Annotation.Score", "Interaction.Score", "Confidence", "QueryID", "ensembl_gene_id".

Examples

if (FALSE) { # \dontrun{
test <- searchHP("PF3D7_0418300")

## To use it for other organism, turn off uniprotToGID and provide taxid of the organism
test <- searchHP("BRCA1",taxid = "9606" , uniprotToGID = FALSE)
} # }