DOSE: Disease Ontology Semantic and Enrichment analysis

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This package implements five methods proposed by Resnik, Schlicker, Jiang, Lin and Wang respectively for measuring semantic similarities among DO terms and gene products. Enrichment analyses including hypergeometric model and gene set enrichment analysis are also implemented for discovering disease associations of high-throughput biological data.

DOSE is released within the Bioconductor project and the source code is hosted in GitHub.

Author

Guangchuang Yu, School of Public Health, The University of Hong Kong.

Citation

Please cite the following article when using DOSE:

doi citation Altmetric

Yu G, Wang L, Yan G and He QY*. DOSE: an R/Bioconductor package for Disease Ontology Semantic and Enrichment analysis. Bioinformatics, 2015, 31(4):608-609.

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Installation

Install DOSE is easy, follow the guide in the Bioconductor page:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
## biocLite("BiocUpgrade") ## you may need this
biocLite("DOSE")

Overview

Semantic similarity measurement

Enrichment Analysis

Visualization

Find out details and examples on Documentation.

Find out more on projects.

Projects that depend on DOSE

Bioconductor packages

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