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FungiDB specifications

Information


Unique identifier OMICS_03103
Name FungiDB
Restrictions to use None
Maintained Yes

Maintainer


  • person_outline Jason E. Stajich

Publication for FungiDB

FungiDB citations

 (29)
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The Fusarium graminearum Histone Acetyltransferases Are Important for Morphogenesis, DON Biosynthesis, and Pathogenicity

2018
Front Microbiol
PMCID: 5932188
PMID: 29755419
DOI: 10.3389/fmicb.2018.00654
call_split See protocol

[…] fferentially enriched was analyzed with TBtools (https://github.com/CJ-Chen/TBtools). Primary metabolism-associated genes were download from The Fungal and Oomycete Genomics Resource Database (http://fungidb.org/) with GO term “0044238, primary metabolic process.” Secondary metabolism gene clusters were predicted by Sieber et al. (). Genes associated with sexual reproduction were from two previous […]

library_books

A Predicted Mannoprotein Participates in Cryptococcus gattii Capsular Structure

2018
PMCID: 5917426
DOI: 10.1128/mSphere.00023-18

[…] The predicted proteomes of C. gattii R265 and C. neoformans H99 were retrieved from the Broad Institute () and now available at the FungiDB database (http://fungidb.org/fungidb/). SignalP was used for signal peptide prediction (), PredGPI was used for glycosylphosphatidylinositol (GPI) anchor prediction (), and GlycoEP standard wa […]

library_books

FungiDB: An Integrated Bioinformatic Resource for Fungi and Oomycetes

2018
PMCID: 5872342
DOI: 10.3390/jof4010039

[…] analysis and display, and the ability to share and export analysis results []. Developed in partnership with Globus Genomics [] and accessed through the Analyze My Experiment tab on the home page of FungiDB, the EuPathDB Galaxy instance houses a large variety of bioinformatics tools. Users can create their own private Galaxy workspace by creating a Globus account through FungiDB or any other EuPa […]

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Proteome analysis of Aspergillus flavus isolate specific responses to oxidative stress in relationship to aflatoxin production capability

2018
Sci Rep
PMCID: 5821837
PMID: 29467403
DOI: 10.1038/s41598-018-21653-x
call_split See protocol

[…] obability (q-value) of ≤0.05.Functional classification and subcellular localization of the detected and differentially expressed proteins was performed using the Gene Ontology (GO) enrichment tool in FungiDB. Functional and localization term consolidation was then performed using REVIGO. Visualization of GO biological process terms for each isolate was performed based on REVIGO outputs using R-stu […]

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Characterization of indole 3 pyruvic acid pathway mediated biosynthesis of auxin in Neurospora crassa

2018
PLoS One
PMCID: 5805262
PMID: 29420579
DOI: 10.1371/journal.pone.0192293
call_split See protocol

[…] s as well as in experimental studies. First, Neurospora crassa protein sequences for the enzymes mentioned above were determined using the Broad Institute database (http://www.broadinstitute.org) and FungiDB (http://fungidb.org/fungidb/). Then, homologous sequences in other species were checked and retrieved by bidirectional BLAST using the Broad Institute database, FungiDB and the National Centre […]

library_books

The Ancient Link between G Protein Coupled Receptors and C Terminal Phospholipid Kinase Domains

2018
MBio
PMCID: 5784254
PMID: 29362235
DOI: 10.1128/mBio.02119-17

[…] epicted in  in the supplemental material). Protein sequences of previously annotated GPCR-PIPKs (, ) were used as queries for BLAST searches (E value cutoff score of 1 e−1) against the NCBI, UniProt, FungiDB (), and EuPathDB databases () (last accessed 5 May 2017). These databases cover proteomes of a wide range of species, including archaea, bacteria, and organisms from all eukaryotic supergroups […]

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FungiDB institution(s)
Department of Plant Pathology and Microbiology, University of California, Riverside, CA, USA

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