GeneSetDB: A comprehensive meta-database, statistical and visualisation framework for gene set analysis

Hiromitsu Araki, Christoph Knapp, Peter Tsai, Cristin Print

Research output: Contribution to journalArticle

34 Citations (Scopus)

Abstract

Most " omics" experiments require comprehensive interpretation of the biological meaning of gene lists. To address this requirement, a number of gene set analysis (GSA) tools have been developed. Although the biological value of GSA is strictly limited by the breadth of the gene sets used, very few methods exist for simultaneously analysing multiple publically available gene set databases. Therefore, we constructed GeneSetDB (http://genesetdb.auckland.ac.nz/haeremai.html), a comprehensive meta-database, which integrates 26 public databases containing diverse biological information with a particular focus on human disease and pharmacology. GeneSetDB enables users to search for gene sets containing a gene identifier or keyword, generate their own gene sets, or statistically test for enrichment of an uploaded gene list across all gene sets, and visualise gene set enrichment and overlap using a clustered heat map.

Original languageEnglish
Pages (from-to)76-82
Number of pages7
JournalFEBS Open Bio
Volume2
DOIs
Publication statusPublished - May 22 2012

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Visualization
Genes
Databases
Hot Temperature
Pharmacology

All Science Journal Classification (ASJC) codes

  • Biochemistry, Genetics and Molecular Biology(all)

Cite this

GeneSetDB : A comprehensive meta-database, statistical and visualisation framework for gene set analysis. / Araki, Hiromitsu; Knapp, Christoph; Tsai, Peter; Print, Cristin.

In: FEBS Open Bio, Vol. 2, 22.05.2012, p. 76-82.

Research output: Contribution to journalArticle

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