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Related Experiment Video

Updated: Mar 28, 2026

A Pathway Association Study Tool for GWAS Analyses of Metabolic Pathway Information

A Pathway Association Study Tool for GWAS Analyses of Metabolic Pathway Information

Published on: July 1, 2020

ReactomePA: an R/Bioconductor package for reactome pathway analysis and visualization.

Guangchuang Yu¹, Qing-Yu He²

¹Key Laboratory of Functional Protein Research of Guangdong Higher Education Institutes, Institute of Life and Health Engineering, College of Life Science and Technology, Jinan University, Guangzhou, 510632, China. tqyhe@jnu.edu.cn and State Key Laboratory of Emerging Infectious Disease, School of Public Health, The University of Hong Kong, Hong Kong SAR, China.

Molecular Biosystems

|December 15, 2015

Summary

This summary is machine-generated.

ReactomePA is an R/Bioconductor package for analyzing biological pathways from high-throughput data. It offers enrichment analyses and visualization tools for functional genomic studies.

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Area of Science:

Bioinformatics
Computational Biology
Systems Biology

Background:

High-throughput biological data requires advanced analytical tools for pathway interpretation.
Understanding genomic coordination and functional significance of genomic loci is crucial.
Manual curation of pathway annotation databases like Reactome aids in high-order pathway discovery.

Purpose of the Study:

To introduce ReactomePA, an R/Bioconductor package for biological pathway enrichment analysis.
To enable functional analysis of genomic coordination from sequencing experiments.
To provide tools for comparing different experimental datasets and visualizing results.

Main Methods:

Utilizes hypergeometric tests and gene set enrichment analyses.
Applies functional analysis to genomic loci, including cis-regulatory elements and non-coding regions.
Incorporates visualization functions for customizable, publication-quality figures.

Main Results:

ReactomePA facilitates the unveiling of high-order biological pathways.
Enables the analysis of functional significance of genomic loci.
Supports comparative analysis across multiple experiments.

Conclusions:

ReactomePA is a versatile R/Bioconductor package for pathway enrichment and functional genomic analysis.
The package provides robust tools for data visualization and interpretation.
Freely available through Bioconductor, promoting accessibility for researchers.