A comprehensive mapping between KEGG Orthology (KO) identifiers and KEGG pathways. This dataset contains mappings covering 532 pathways and 23,466 unique KO IDs, filtered to include only real KEGG pathway maps (5-digit IDs).
Format
A data frame with 9 variables:
- pathway_id
KEGG pathway identifier (e.g., "ko00010")
- pathway_number
KEGG pathway number
- pathway_name
Full name of the pathway
- ko_id
KEGG Orthology identifier (e.g., "K00001")
- ko_description
Description of the KO
- ec_number
EC number associated with the KO (if applicable)
- level1
KEGG pathway hierarchy Level 1 classification
- level2
KEGG pathway hierarchy Level 2 classification
- level3
KEGG pathway hierarchy Level 3 classification
Source
KEGG database (https://www.kegg.jp/)
Details
This reference data is used by the ko2kegg_abundance function to convert
KO abundance data to KEGG pathway abundance. The data is stored internally and does not
require internet connectivity to use.
The dataset covers major KEGG pathway categories including:
Metabolism
Genetic Information Processing
Environmental Information Processing
Cellular Processes
Organismal Systems
Human Diseases
See also
ko2kegg_abundance for converting KO abundance to pathway abundance
Examples
# Load the reference data
data(ko_to_kegg_reference)
# View structure
str(ko_to_kegg_reference)
# Get unique pathways
unique_pathways <- unique(ko_to_kegg_reference$pathway_id)
length(unique_pathways)
# Find KOs for a specific pathway
glycolysis_kos <- ko_to_kegg_reference[ko_to_kegg_reference$pathway_id == "ko00010", ]
head(glycolysis_kos)