Related Experiment Video
Updated: Jun 11, 2026

Microarray Analysis for Saccharomyces cerevisiae
Published on: April 7, 2011
FungiFun3: systemic gene set enrichment analysis for fungal species
Albert Garcia Lopez1, Daniela Albrecht-Eckardt2, Gianni Panagiotou1,3
1Department of Microbiome Dynamics, Leibniz Institute for Natural Product Research and Infection Biology - Hans-Knöll-Institute (Leibniz-HKI), 07745 Jena, Germany.
Summary:
The ever-growing amount of genome-wide omics data paved the way for solving life science problems in a data-driven manner. Among others, enrichment analysis is part of the standard analysis arsenal to determine systemic signals in any given transcriptomic or proteomic data. Only a part of the members of the fungal kingdom, however, can be analyzed via public web applications, despite the global rise of fungal pathogens and their increasing resistance to antimycotics. We present FungiFun3, a major update of our user-friendly gene set enrichment web application dedicated to fungi. FungiFun3 was rebuilt from scratch to support a modern and easy-to-use web interface and supports >4-fold more fungal strains (n = 1287 in total) than its predecessor. In addition, it also allows ranked gene set enrichment analysis at the genomic scale. FungiFun3 thus serves as a starting hub for identifying molecular signals in omics datasets related to a vast amount of available fungal strains including human fungal pathogens of the WHO's priority list and far beyond.
Availability And Implementation:
FungiFun3, including sample data and FAQ, is freely available at https://fungifun3.hki-jena.de/.
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Gene Families
Occasionally these regions can be adapted to take on new roles within the organism, becoming novel genes...
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Occasionally these regions can be adapted to take on new roles within the organism, becoming novel genes...
Overview of Fungi
Fungal Group Zygomycota
Fungal Phylum Microsporidia
Fungal Phylum Basidiomycota

