EdgeInfo: Parse the protein-protein interactions of a KEGG pathway

In uc-bd2k/paslincs: Pathway activity signatures from LINCS L1000 consensus gene signatures

Description

Parse the protein-protein inhibition/activation interactions of a KEGG pathway

Usage

EdgeInfo(pathway)

Arguments

pathway

A character value of KEGG pathway ID, e.g. "hsa04150". pathway must be specified with the three- or four-letter KEGG organism code (see organism code at: https://www.genome.jp/kegg-bin/get_htext?br08601.keg).

Value

A data frame is returned with six columns:

Subtype	Type of the protein-protein interaction, either "activation" or "inhibition".
GeneID_a	Gene ID of one end of protein-protein interactions.
GeneID_b	Gene ID of the other end of protein-protein interactions.
GeneSymbol_a	Gene symbol of one end of protein-protein interactions.
GeneSymbol_b	Gene symbol of the other end of protein-protein interactions.
Interaction	Code of the types of protein-protein interactions. The value "1" corresponds to "activation", and "-1" corresponds to "inhibition".

Examples

EdgeInfo("hsa04150")

uc-bd2k/paslincs documentation built on May 28, 2020, 8:20 a.m.