getTableFromPPI: Get table representation of the PPI.

In lptolik/synaptome.db: Synamptosome Proteome Database

Get table representation of the PPI.

Description

Combine information from PPI data.frame obtained with functions like getPPIbyName or getPPIbyEntrez with information about genes obtained from getGenesByID to make interpretable table representation.

Usage

getTableFromPPI(ppi)

Arguments

ppi	PPI data.frame with columns A and B, obtained from functions like getPPIbyName

Value

table with the following columns added for both interactors (A and B):

• GeneID internal database ID

• MGI MGI ID

• HumanEntrez Human Entrez ID

• MouseEntrez Mouse Entrez ID

• HumanName Human gene name

• MouseName Mouse gene name

• RatEntrez Rat Entrez ID

• Rat Name Rat gene name

See Also

getPPIbyName(), getPPIbyEntrez() and getPPIbyIDs() to get PPI data.frame, getIGraphFromPPI() to get igraph representation of the PPI data.frame.

Other PPI functions: getIGraphFromPPI(), getPPIbyEntrez(), getPPIbyIDs4BrainRegion(), getPPIbyIDs4Compartment(), getPPIbyIDs(), getPPIbyName()

Examples

tbl <- getTableFromPPI(getPPIbyIDs(c(48, 585, 710), type = "limited"))

lptolik/synaptome.db documentation built on Sept. 13, 2023, 2:50 p.m.