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This is the development version of AHPathbankDbs; for the stable release version, see AHPathbankDbs.

Metabolites and proteins linked to PathBank pathways (for AnnotationHub)

Bioconductor version: Development (3.20)

The package provides a comprehensive mapping table of metabolites and proteins linked to PathBank pathways. The tables include HMDB, KEGG, ChEBI, CAS, Drugbank, Uniprot IDs. The tables are provided for each of the 10 species ("Homo sapiens", "Escherichia coli", "Mus musculus", "Arabidopsis thaliana", "Saccharomyces cerevisiae", "Bos taurus", "Caenorhabditis elegans", "Rattus norvegicus", "Drosophila melanogaster", and "Pseudomonas aeruginosa"). These table information can be used for Metabolite Set (and other) Enrichment Analysis.

Author: Kozo Nishida [aut, cre]

Maintainer: Kozo Nishida <kozo.nishida at>

Citation (from within R, enter citation("AHPathbankDbs")):


To install this package, start R (version "4.4") and enter:

if (!require("BiocManager", quietly = TRUE))

# The following initializes usage of Bioc devel


For older versions of R, please refer to the appropriate Bioconductor release.


To view documentation for the version of this package installed in your system, start R and enter:

Provide PathbankDb databases for AnnotationHub HTML R Script
Reference Manual PDF


biocViews AnnotationData, AnnotationHub, CustomDBSchema, FunctionalAnnotation
Version 0.99.5
License Artistic-2.0
Depends R (>= 4.1.0)
Imports AnnotationHub(>= 2.23.0)
System Requirements
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Suggests BiocStyle, magrittr, dplyr, tibble, knitr, rmarkdown
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Follow Installation instructions to use this package in your R session.

Source Package AHPathbankDbs_0.99.5.tar.gz
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