The kingdom of Fungi includes a biologically diverse group of organisms adapted to a wide range of environments. While numerous fungal species are a food source and/or natural recyclers of plant biomass others are targets of industrial, agricultural, and biomedical research due to their important roles in biofuel production and pathogenesis. Many fungal plant pathogens including but not limited to Fusarium, Magnaporthe, Ustilago, and Zymoseptoria species threaten agricultural ecosystems and food security worldwide. Aspergillus, Candida, Coccidioides, Cryptococcus, Histoplasma, Pneumocystis, Batrachochytrium and other human and animal fungal pathogens cause allergies, serious illnesses, and sometimes life-threatening infections that are of great concern for veterinary and medical professionals arounds the world.

Advancements in high throughput ‘omics’ data generation technologies enable researchers to carry out high- large-scale analyses to investigate genomes, transcriptomes, proteomes, and metabolomes of numerous fungal organisms to address questions about pathogenicity, host-pathogen interactions, and identify new drug targets. To facilitate accessibility and analysis, a number of online fungal resources have been developed. As the complexity of the integrated data increases, so do the resources!

This week-long course is a collaborative teaching effort between the web-based fungal data mining resources:  

This course provides hands-on training on how to take advantage of unique tools offered by each database; develop testable hypotheses, and interrogate transcriptomics, proteomics and genomics datasets across multiple databases and different user interfaces.

Daily activities at the workshop will include individual and group hands-on training exercises, supplementary lectures on bioinformatic techniques and tools used by various databases, and presentations by distinguished guest speakers. For example, you will learn how to:

  • perform RNA-seq and SNP analysis and visualization via EuPathDB Galaxy workspace in FungiDB
  • find secondary metabolite clusters in MycoCosm
  • find virulence genes and annotation in Ensembl/PhytoPathDB/PHI-Base
  • access genetic interactions in CGD/SGD.

Feedback from the 2017 course

"Excellent course."
"You have done an exellent job, keep on going."
"This was really a great course. I hope more people have the change to do it. I think the supervisors of the course were highly motivated, prepared to discuss all different aspects, and were able to answer all different questions that we asked. The contribution of them made the course really valuable. Thank you very much!"
"would like to congratulate the organizers of the course for their great work."

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