Kegg Conv Link Tools¶
Configuration File: kegg_conv_link_tools.json
Tool Type: Local
Tools Count: 2
This page contains all tools defined in the kegg_conv_link_tools.json configuration file.
Available Tools¶
KEGG_convert_ids (Type: KEGGExtTool)¶
Convert KEGG gene/compound identifiers to external database IDs using the KEGG /conv API. Maps KE…
KEGG_convert_ids tool specification
Tool Information:
Name:
KEGG_convert_idsType:
KEGGExtToolDescription: Convert KEGG gene/compound identifiers to external database IDs using the KEGG /conv API. Maps KEGG gene IDs (e.g., hsa:7157 for TP53) to UniProt, NCBI Gene, NCBI Protein, ChEBI, or PubChem IDs. Essential for cross-database integration in bioinformatics workflows. Example: converting hsa:7157 to UniProt returns P04637 (TP53_HUMAN).
Parameters:
kegg_id(string) (required) KEGG entry ID. For genes use format ‘organism:gene_id’ (e.g., ‘hsa:7157’ for human TP53, ‘mmu:22059’ for mouse Trp53). For compounds use ‘cpd:C00002’ (ATP). Multiple IDs separated by ‘+’ (e.g., ‘hsa:7157+hsa:672’).target_db(string) (required) External database to convert to. Options: ‘uniprot’ (UniProt accessions), ‘ncbi-geneid’ (NCBI Gene/Entrez IDs), ‘ncbi-proteinid’ (NCBI protein accessions), ‘chebi’ (ChEBI compound IDs), ‘pubchem’ (PubChem substance IDs).
Example Usage:
query = {
"name": "KEGG_convert_ids",
"arguments": {
"kegg_id": "example_value",
"target_db": "example_value"
}
}
result = tu.run(query)
KEGG_link_entries (Type: KEGGExtTool)¶
Find cross-references between KEGG databases using the KEGG /link API. Given a KEGG entry (gene, …
KEGG_link_entries tool specification
Tool Information:
Name:
KEGG_link_entriesType:
KEGGExtToolDescription: Find cross-references between KEGG databases using the KEGG /link API. Given a KEGG entry (gene, pathway, disease, drug, compound), find all linked entries in another KEGG database. Examples: find all diseases for gene hsa:7157 (TP53), all genes in a pathway, or all pathways for a compound. Complements KEGG_get_gene_pathways with more flexible cross-database queries.
Parameters:
source(string) (required) KEGG entry ID to query. Examples: ‘hsa:7157’ (gene), ‘hsa05200’ (pathway), ‘H00004’ (disease), ‘D00279’ (drug), ‘C00002’ (compound).target(string) (required) Target KEGG database to search for links. Options: ‘pathway’, ‘disease’, ‘drug’, ‘compound’, ‘ko’ (orthology), ‘enzyme’, ‘reaction’, ‘module’. Can also use organism prefix for genes (e.g., ‘hsa’).
Example Usage:
query = {
"name": "KEGG_link_entries",
"arguments": {
"source": "example_value",
"target": "example_value"
}
}
result = tu.run(query)