FungiFun protocols

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description
FungiFun computational protocol

FungiFun specifications

Information


Unique identifier OMICS_05903
Name FungiFun
Interface Web user interface
Restrictions to use None
Computer skills Basic
Version 2.2.8
Stability Beta
Maintained Yes

Maintainer


  • person_outline Steffen Priebe <>

Publications for FungiFun

FungiFun IN pipelines

 (9)
2017
PMCID: 5309816
PMID: 28176784
DOI: 10.1038/ncomms14444

[…] and the pezizomycotina, and (2) not detected in s. cerevisiae, s. pombe and non-fungal species using blastp (ncbi nr database, e-value=1e−3)., functional enrichment analysis was performed using fungifun75. tmds in the neurospora proteome and the set of candidate cm-associated proteins were predicted using tmpred76. the presence of pts1 was predicted by searching for the signature c-terminal […]

2017
PMCID: 5559454
PMID: 28814742
DOI: 10.1038/s41598-017-08239-9

[…] were adjusted to determine differentially regulated genes100. venn diagrams were created by venny 2.0.2 (http://bioinfogp.cnb.csic.es/tools/venny/index.html)101. go analysis was carried out with fungifun2 (https://elbe.hki-jena.de/fungifun/fungifun.php)102. the whole dataset of detected protein-coding genes and their expression can be found in table s2., sequence information for all c. […]

2017
PMCID: 5559454
PMID: 28814742
DOI: 10.1038/s41598-017-08239-9

[…] regulated genes100. venn diagrams were created by venny 2.0.2 (http://bioinfogp.cnb.csic.es/tools/venny/index.html)101. go analysis was carried out with fungifun2 (https://elbe.hki-jena.de/fungifun/fungifun.php)102. the whole dataset of detected protein-coding genes and their expression can be found in table s2., sequence information for all c. albicans orfs plus intergenic up- […]

2017
PMCID: 5559454
PMID: 28814742
DOI: 10.1038/s41598-017-08239-9

[…] regulated genes100. venn diagrams were created by venny 2.0.2 (http://bioinfogp.cnb.csic.es/tools/venny/index.html)101. go analysis was carried out with fungifun2 (https://elbe.hki-jena.de/fungifun/fungifun.php)102. the whole dataset of detected protein-coding genes and their expression can be found in table s2., sequence information for all c. albicans orfs plus intergenic up- and downstream […]

2015
PMCID: 4565559
PMID: 26356475
DOI: 10.1371/journal.pone.0136932

[…] compared to the control (0 h). genes were considered differentially expressed when the fdr adjusted p-value was ≤ 0.05 in any of these comparisons. funcat enrichment analysis was performed using fungifun [29], also with an adjusted p-value threshold of 0.05. the diagrams were created using r package venndiagram [30]., prior-knowledge was implemented with rna-seq data obtained by incubating […]

FungiFun institution(s)
Research Group Systems Biology/Bioinformatics, Leibniz Institute for Natural Product Research and Infection Biology – Hans-Knöll-Institute (HKI), Jena, Germany

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