Fungal and Oomycete genomics resource
Names
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Fungal and Oomycete genomics resource
metasource: Fairsharing.org
version: FAIRsharing.org: FungiDB; Fungal and Oomycete genomics resource; DOI: https://doi.org/10.25504/FAIRsharing.xf30yc; Last edited: Feb. 23, 2021, 3:50 p.m.; Last accessed: Jan 03 2022 7:08 p.m.
FungiDB
metasource: Fairsharing.org
version: FAIRsharing.org: FungiDB; Fungal and Oomycete genomics resource; DOI: https://doi.org/10.25504/FAIRsharing.xf30yc; Last edited: Feb. 23, 2021, 3:50 p.m.; Last accessed: Jan 03 2022 7:08 p.m.
metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657
metasource: re3data.org
version: re3data.org: FungiDB; editing status 2021-09-02; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R35K9M last accessed: 2022-11-04
The Fungal and Oomycete Genomics Resource
metasource: re3data.org
version: re3data.org: FungiDB; editing status 2021-09-02; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R35K9M last accessed: 2022-11-04
Names
More detailed information about this field from each metasource.
Fungal and Oomycete genomics resource
metasource: Fairsharing.orgversion: FAIRsharing.org: FungiDB; Fungal and Oomycete genomics resource; DOI: https://doi.org/10.25504/FAIRsharing.xf30yc; Last edited: Feb. 23, 2021, 3:50 p.m.; Last accessed: Jan 03 2022 7:08 p.m.
FungiDB
metasource: Fairsharing.orgversion: FAIRsharing.org: FungiDB; Fungal and Oomycete genomics resource; DOI: https://doi.org/10.25504/FAIRsharing.xf30yc; Last edited: Feb. 23, 2021, 3:50 p.m.; Last accessed: Jan 03 2022 7:08 p.m.
metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657
metasource: re3data.org
version: re3data.org: FungiDB; editing status 2021-09-02; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R35K9M last accessed: 2022-11-04
The Fungal and Oomycete Genomics Resource
metasource: re3data.orgversion: re3data.org: FungiDB; editing status 2021-09-02; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R35K9M last accessed: 2022-11-04
Other names: FungiDB, The Fungal and Oomycete Genomics Resource
Names
More detailed information about this field from each metasource.
Fungal and Oomycete genomics resource
metasource: Fairsharing.orgversion: FAIRsharing.org: FungiDB; Fungal and Oomycete genomics resource; DOI: https://doi.org/10.25504/FAIRsharing.xf30yc; Last edited: Feb. 23, 2021, 3:50 p.m.; Last accessed: Jan 03 2022 7:08 p.m.
FungiDB
metasource: Fairsharing.orgversion: FAIRsharing.org: FungiDB; Fungal and Oomycete genomics resource; DOI: https://doi.org/10.25504/FAIRsharing.xf30yc; Last edited: Feb. 23, 2021, 3:50 p.m.; Last accessed: Jan 03 2022 7:08 p.m.
metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657
metasource: re3data.org
version: re3data.org: FungiDB; editing status 2021-09-02; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R35K9M last accessed: 2022-11-04
The Fungal and Oomycete Genomics Resource
metasource: re3data.orgversion: re3data.org: FungiDB; editing status 2021-09-02; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R35K9M last accessed: 2022-11-04
FungiDB is an integrated genomic and functional genomic database for the kingdom Fungi. The database integrates whole genome sequence and annotation and also includes experimental and environmental isolate sequence data. The database includes comparative genomics, analysis of gene expression, and supplemental bioinformatics analyses and a web interface for data-mining.
Description
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FungiDB is an integrated genomic and functional genomic database for the kingdom Fungi. The database integrates whole genome sequence and annotation and also includes experimental and environmental isolate sequence data. The database includes comparative genomics, analysis of gene expression, and supplemental bioinformatics analyses and a web interface for data-mining.
metasource: Fairsharing.orgversion: FAIRsharing.org: FungiDB; Fungal and Oomycete genomics resource; DOI: https://doi.org/10.25504/FAIRsharing.xf30yc; Last edited: Feb. 23, 2021, 3:50 p.m.; Last accessed: Jan 03 2022 7:08 p.m.
Functional genomics of fungi
metasource: Nucleic Acid Research database catalogueversion: extracted_at: 2022-11-04T11:16:25.468657
FungiDB belongs to the EuPathDB family of databases and is an integrated genomic and functional genomic database for the kingdom Fungi. FungiDB was first released in early 2011 as a collaborative project between EuPathDB and the group of Jason Stajich (University of California, Riverside). At the end of 2015, FungiDB was integrated into the EuPathDB bioinformatic resource center. FungiDB integrates whole genome sequence and annotation and also includes experimental and environmental isolate sequence data. The database includes comparative genomics, analysis of gene expression, and supplemental bioinformatics analyses and a web interface for data-mining.
metasource: re3data.orgversion: re3data.org: FungiDB; editing status 2021-09-02; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R35K9M last accessed: 2022-11-04
Webpage:
http://fungidb.orgWebpage
More detailed information about this field from each metasource.
http://fungidb.org
metasource: Fairsharing.orgversion: FAIRsharing.org: FungiDB; Fungal and Oomycete genomics resource; DOI: https://doi.org/10.25504/FAIRsharing.xf30yc; Last edited: Feb. 23, 2021, 3:50 p.m.; Last accessed: Jan 03 2022 7:08 p.m.
metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657
http://www.fungidb.org/fungidb/
metasource: re3data.orgversion: re3data.org: FungiDB; editing status 2021-09-02; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R35K9M last accessed: 2022-11-04
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other
metasource: re3data.orgversion: re3data.org: FungiDB; editing status 2021-09-02; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R35K9M last accessed: 2022-11-04
Licence URL
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https://www.niaid.nih.gov/research/data-sharing-and-release-guidelines
metasource: re3data.orgversion: re3data.org: FungiDB; editing status 2021-09-02; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R35K9M last accessed: 2022-11-04
Publications:
Publications
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FungiDB: an integrated functional genomics database for fungi
PMID: 22064857
metasource: Fairsharing.org
version: FAIRsharing.org: FungiDB; Fungal and Oomycete genomics resource; DOI: https://doi.org/10.25504/FAIRsharing.xf30yc; Last edited: Feb. 23, 2021, 3:50 p.m.; Last accessed: Jan 03 2022 7:08 p.m.
Literature-based gene curation and proposed genetic nomenclature for cryptococcus
PMID: 24813190
metasource: Fairsharing.org
version: FAIRsharing.org: FungiDB; Fungal and Oomycete genomics resource; DOI: https://doi.org/10.25504/FAIRsharing.xf30yc; Last edited: Feb. 23, 2021, 3:50 p.m.; Last accessed: Jan 03 2022 7:08 p.m.
Database whiplash, crowdsourcing, and FungiDB
PMID: 27259951
metasource: Fairsharing.org
version: FAIRsharing.org: FungiDB; Fungal and Oomycete genomics resource; DOI: https://doi.org/10.25504/FAIRsharing.xf30yc; Last edited: Feb. 23, 2021, 3:50 p.m.; Last accessed: Jan 03 2022 7:08 p.m.
http://dx.doi.org/10.1093/nar/GKR918
metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657
Publications
More detailed information about this field from each metasource.
FungiDB: an integrated functional genomics database for fungi
PMID: 22064857
metasource: Fairsharing.org
version: FAIRsharing.org: FungiDB; Fungal and Oomycete genomics resource; DOI: https://doi.org/10.25504/FAIRsharing.xf30yc; Last edited: Feb. 23, 2021, 3:50 p.m.; Last accessed: Jan 03 2022 7:08 p.m.
Literature-based gene curation and proposed genetic nomenclature for cryptococcus
PMID: 24813190
metasource: Fairsharing.org
version: FAIRsharing.org: FungiDB; Fungal and Oomycete genomics resource; DOI: https://doi.org/10.25504/FAIRsharing.xf30yc; Last edited: Feb. 23, 2021, 3:50 p.m.; Last accessed: Jan 03 2022 7:08 p.m.
Database whiplash, crowdsourcing, and FungiDB
PMID: 27259951
metasource: Fairsharing.org
version: FAIRsharing.org: FungiDB; Fungal and Oomycete genomics resource; DOI: https://doi.org/10.25504/FAIRsharing.xf30yc; Last edited: Feb. 23, 2021, 3:50 p.m.; Last accessed: Jan 03 2022 7:08 p.m.
http://dx.doi.org/10.1093/nar/GKR918
metasource: Nucleic Acid Research database catalogueversion: extracted_at: 2022-11-04T11:16:25.468657
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FungiDB: an integrated functional genomics database for fungi
PubMed citations: 159.
159 articles citing: FungiDB: an integrated functional genomics database for fungi
Phenotype to genotype in Neurospora crassa: Association of the scumbo phenotype with mutations in the gene encoding ceramide C9-methyltransferase. PMID:35909622
Molecular Epidemiology and Antifungal Resistance of Cryptococcus neoformans From Human Immunodeficiency Virus-Negative and Human Immunodeficiency Virus-Positive Patients in Eastern China. PMID:35865921
The International Space Station Environment Triggers Molecular Responses in Aspergillus niger. PMID:35847112
Transcriptional Response of Candida auris to the Mrr1 Inducers Methylglyoxal and Benomyl. PMID:35473297
Comprehensively dissecting the hub regulation of PkaC on high-productivity and pellet macromorphology in citric acid producing Aspergillus niger. PMID:35213792
A Library of Aspergillus niger Chassis Strains for Morphology Engineering Connects Strain Fitness and Filamentous Growth With Submerged Macromorphology. PMID:35111742
The Solvent Dimethyl Sulfoxide Affects Physiology, Transcriptome and Secondary Metabolism of Aspergillus flavus. PMID:34947037
A J Domain Protein Functions as a Histone Chaperone to Maintain Genome Integrity and the Response to DNA Damage in a Human Fungal Pathogen. PMID:34933457
Host Lung Environment Limits Aspergillus fumigatus Germination through an SskA-Dependent Signaling Response. PMID:34878292
Chromosome assembled and annotated genome sequence of Aspergillus flavus NRRL 3357. PMID:34849826
Dynamic genome plasticity during unisexual reproduction in the human fungal pathogen Cryptococcus deneoformans. PMID:34843473
Vam6/Vps39/TRAP1-domain proteins influence vacuolar morphology, iron acquisition and virulence in Cryptococcus neoformans. PMID:34800311
The evolving species concepts used for yeasts: from phenotypes and genomes to speciation networks. PMID:34720775
Aspergillus fumigatus In-Host HOG Pathway Mutation for Cystic Fibrosis Lung Microenvironment Persistence. PMID:34465017
Understanding and controlling filamentous growth of fungal cell factories: novel tools and opportunities for targeted morphology engineering. PMID:34425914
Turning Inside Out: Filamentous Fungal Secretion and Its Applications in Biotechnology, Agriculture, and the Clinic. PMID:34356914
Transcription in fungal conidia before dormancy produces phenotypically variable conidia that maximize survival in different environments. PMID:34183813
Moderate levels of 5-fluorocytosine cause the emergence of high frequency resistance in cryptococci. PMID:34103502
Analysis of putative quadruplex-forming sequences in fungal genomes: novel antifungal targets? PMID:33956596
Longitudinal study of the scalp microbiome suggests coconut oil to enrich healthy scalp commensals. PMID:33790324
Rust expression browser: an open source database for simultaneous analysis of host and pathogen gene expression profiles with expVIP. PMID:33750297
Current views on endocytosis in filamentous fungi. PMID:33628604
Aspergillus fumigatus Strain-Specific Conidia Lung Persistence Causes an Allergic Broncho-Pulmonary Aspergillosis-Like Disease Phenotype. PMID:33597172
Transcriptomic, Protein-DNA Interaction, and Metabolomic Studies of VosA, VelB, and WetA in Aspergillus nidulans Asexual Spores. PMID:33563821
Genome-based engineering of ligninolytic enzymes in fungi. PMID:33478513
Mrr1 regulation of methylglyoxal catabolism and methylglyoxal-induced fluconazole resistance in Candida lusitaniae. PMID:33319423
Fungi.guru: Comparative genomic and transcriptomic resource for the fungi kingdom. PMID:33304470
Clustering analysis of large-scale phenotypic data in the model filamentous fungus Neurospora crassa. PMID:33138786
Effect of H2A.Z deletion is rescued by compensatory mutations in Fusarium graminearum. PMID:33091009
Targeting Methionine Synthase in a Fungal Pathogen Causes a Metabolic Imbalance That Impacts Cell Energetics, Growth, and Virulence. PMID:33051366
In the fungus where it happens: History and future propelling Aspergillus nidulans as the archetype of natural products research. PMID:33035657
Securing a furan-based biorefinery: disclosing the genetic basis of the degradation of hydroxymethylfurfural and its derivatives in the model fungus Aspergillus nidulans. PMID:32813320
Not that kind of tree: Assessing the potential for decision tree-based plant identification using trait databases. PMID:32765978
Lipo-chitooligosaccharides as regulatory signals of fungal growth and development. PMID:32753587
Defining the transcriptional responses of Aspergillus nidulans to cation/alkaline pH stress and the role of the transcription factor SltA. PMID:32735212
Metabolomic Analysis of Aspergillus niger Isolated From the International Space Station Reveals Enhanced Production Levels of the Antioxidant Pyranonigrin A. PMID:32670208
Sterol-Response Pathways Mediate Alkaline Survival in Diverse Fungi. PMID:32546619
The Novel J-Domain Protein Mrj1 Is Required for Mitochondrial Respiration and Virulence in Cryptococcus neoformans. PMID:32518190
Defining Critical Genes During Spherule Remodeling and Endospore Development in the Fungal Pathogen, Coccidioides posadasii. PMID:32499817
Pathogenomics and Management of Fusarium Diseases in Plants. PMID:32369942
Synergistic and antagonistic drug interactions in the treatment of systemic fungal infections. PMID:32367801
An NCBP3-Domain Protein Mediates Meiotic Silencing by Unpaired DNA. PMID:32291289
Characterization of the CCAAT-binding transcription factor complex in the plant pathogenic fungus Fusarium graminearum. PMID:32184445
Dominance of Mating Type A1 and Indication of Epigenetic Effects During Early Stages of Mating in Phytophthora infestans. PMID:32153537
A secreted protein of 15 kDa plays an important role in Phytophthora palmivora development and pathogenicity. PMID:32047196
5-fluorocytosine resistance is associated with hypermutation and alterations in capsule biosynthesis in Cryptococcus. PMID:31913284
Gene Cloning, Recombinant Expression, Characterization, and Molecular Modeling of the Glycolytic Enzyme Triosephosphate Isomerase from Fusarium oxysporum. PMID:31878282
Integrative Activity of Mating Loci, Environmentally Responsive Genes, and Secondary Metabolism Pathways during Sexual Development of Chaetomium globosum. PMID:31822585
A Fungal Arrestin Protein Contributes to Cell Cycle Progression and Pathogenesis. PMID:31744923
Functional exploration of co-expression networks identifies a nexus for modulating protein and citric acid titres in Aspergillus niger submerged culture. PMID:31728200
GPCR-mediated glucose sensing system regulates light-dependent fungal development and mycotoxin production. PMID:31609971
Genetic relationships between the RACK1 homolog cpc-2 and heterotrimeric G protein subunit genes in Neurospora crassa. PMID:31581262
Cross-Kingdom Analysis of Diversity, Evolutionary History, and Site Selection within the Eukaryotic Macrophage Migration Inhibitory Factor Superfamily. PMID:31554205
Identification of Functional and Druggable Sites in Aspergillus fumigatus Essential Phosphatases by Virtual Screening. PMID:31546755
Identification and manipulation of Neurospora crassa genes involved in sensitivity to furfural. PMID:31508149
The multi PAM2 protein Upa2 functions as novel core component of endosomal mRNA transport. PMID:31338952
ParaDB: A manually curated database containing genomic annotation for the human pathogenic fungi Paracoccidioides spp. PMID:31306428
Roles for Stress Response and Cell Wall Biosynthesis Pathways in Caspofungin Tolerance in Cryptococcus neoformans. PMID:31266771
Oomycete Gene Table: an online database for comparative genomic analyses of the oomycete microorganisms. PMID:31260041
Poly-Saturated Dolichols from Filamentous Fungi Modulate Activity of Dolichol-Dependent Glycosyltransferase and Physical Properties of Membranes. PMID:31234450
A quantitative image analysis pipeline for the characterization of filamentous fungal morphologies as a tool to uncover targets for morphology engineering: a case study using aplD in Aspergillus niger. PMID:31223339
COP9 Signalosome Interaction with UspA/Usp15 Deubiquitinase Controls VeA-Mediated Fungal Multicellular Development. PMID:31216760
Genomic signatures of heterokaryosis in the oomycete pathogen Bremia lactucae. PMID:31201315
Recent trends in molecular diagnostics of yeast infections: from PCR to NGS. PMID:31158289
Type I and II PRMTs regulate catabolic as well as detoxifying processes in Aspergillus nidulans. PMID:31145992
Cytochrome P450 Monooxygenase-Mediated Metabolic Utilization of Benzo[a]Pyrene by Aspergillus Species. PMID:31138742
Fungal acetylome comparative analysis identifies an essential role of acetylation in human fungal pathogen virulence. PMID:31069264
Niche-specific metabolic adaptation in biotrophic and necrotrophic oomycetes is manifested in differential use of nutrients, variation in gene content, and enzyme evolution. PMID:31002734
Moulding the mould: understanding and reprogramming filamentous fungal growth and morphogenesis for next generation cell factories. PMID:30988699
Unveiling the function and regulation control of the DUF3129 family proteins in fungal infection of hosts. PMID:30967021
The role of the GATA transcription factor AreB in regulation of nitrogen and carbon metabolism in Aspergillus nidulans. PMID:30939206
Metabolism and Development during Conidial Germination in Response to a Carbon-Nitrogen-Rich Synthetic or a Natural Source of Nutrition in Neurospora crassa. PMID:30914504
Mechanistic insights into the evolution of DUF26-containing proteins in land plants. PMID:30775457
Mucor circinelloides Thrives inside the Phagosome through an Atf-Mediated Germination Pathway. PMID:30723131
Systems metabolic engineering for citric acid production by Aspergillus niger in the post-genomic era. PMID:30717739
Proteomic characterization of Aspergillus fumigatus isolated from air and surfaces of the International Space Station. PMID:30611835
International Space Station conditions alter genomics, proteomics, and metabolomics in Aspergillus nidulans. PMID:30539259
Updating genome annotation for the microbial cell factory Aspergillus niger using gene co-expression networks. PMID:30496528
Controlling aflatoxin contamination and propagation of Aspergillus flavus by a soy-fermenting Aspergillus oryzae strain. PMID:30442975
Evolution of asexual and sexual reproduction in the aspergilli. PMID:30425416
PAS Domain Protein Pas3 Interacts with the Chromatin Modifier Bre1 in Regulating Cryptococcal Morphogenesis. PMID:30425151
Asexual reproduction and growth rate: independent and plastic life history traits in Neurospora crassa. PMID:30413765
Iron-sensing is governed by mitochondrial, not by cytosolic iron-sulfur cluster biogenesis in Aspergillus fumigatus. PMID:30395137
Comparison of Healthy and Dandruff Scalp Microbiome Reveals the Role of Commensals in Scalp Health. PMID:30338244
Yeast two-hybrid screening reveals a dual function for the histone acetyltransferase GcnE by controlling glutamine synthesis and development in Aspergillus fumigatus. PMID:30324432
Convergent evolution of complex genomic rearrangements in two fungal meiotic drive elements. PMID:30315196
Characterization of Aspergillus niger Isolated from the International Space Station. PMID:30246146
FungiDB: An Integrated Bioinformatic Resource for Fungi and Oomycetes. PMID:30152809
Systematic Dissection of the Evolutionarily Conserved WetA Developmental Regulator across a Genus of Filamentous Fungi. PMID:30131357
Diverse data supports the transition of filamentous fungal model organisms into the post-genomics era. PMID:30123633
Velvet domain protein VosA represses the zinc cluster transcription factor SclB regulatory network for Aspergillus nidulans asexual development, oxidative stress response and secondary metabolism. PMID:30044771
Comparative analysis reveals unexpected genome features of newly isolated Thraustochytrids strains: on ecological function and PUFAs biosynthesis. PMID:30016947
Patterns of Conservation and Diversification in the Fungal Polarization Network. PMID:29931311
A component of the TOR (Target Of Rapamycin) nutrient-sensing pathway plays a role in circadian rhythmicity in Neurospora crassa. PMID:29924817
MARDy: Mycology Antifungal Resistance Database. PMID:29897419
Identifying a novel connection between the fungal plasma membrane and pH-sensing. PMID:29885030
How a fungus shapes biotechnology: 100 years of Aspergillus niger research. PMID:29850025
Biphasic zinc compartmentalisation in a human fungal pathogen. PMID:29727465
Comparative systems analysis of the secretome of the opportunistic pathogen Aspergillus fumigatus and other Aspergillus species. PMID:29700415
Phylogenomic and comparative analysis of the distribution and regulatory patterns of TPP riboswitches in fungi. PMID:29615754
HDAC genes play distinct and redundant roles in Cryptococcus neoformans virulence. PMID:29581526
Introns in Cryptococcus. PMID:29513783
Proteome analysis of Aspergillus flavus isolate-specific responses to oxidative stress in relationship to aflatoxin production capability. PMID:29467403
Multiple Applications of a Transient CRISPR-Cas9 Coupled with Electroporation (TRACE) System in the Cryptococcus neoformans Species Complex. PMID:29444806
Analysis of Transposable Elements in Coccidioides Species. PMID:29371508
The Ancient Link between G-Protein-Coupled Receptors and C-Terminal Phospholipid Kinase Domains. PMID:29362235
Comparative transcriptomics of Aspergillus fumigatus strains upon exposure to human airway epithelial cells. PMID:29345613
Dissecting the Roles of the Calcineurin Pathway in Unisexual Reproduction, Stress Responses, and Virulence in Cryptococcus deneoformans. PMID:29233811
The genomic study of an environmental isolate of Scedosporium apiospermum shows its metabolic potential to degrade hydrocarbons. PMID:29225727
PRM1 and KAR5 function in cell-cell fusion and karyogamy to drive distinct bisexual and unisexual cycles in the Cryptococcus pathogenic species complex. PMID:29176784
Transcriptional Analysis Allows Genome Reannotation and Reveals that Cryptococcus gattii VGII Undergoes Nutrient Restriction during Infection. PMID:28832534
Architecture and dynamics of overlapped RNA regulatory networks. PMID:28768715
The ancestral levels of transcription and the evolution of sexual phenotypes in filamentous fungi. PMID:28704372
Functional Profiling of Transcription Factor Genes in Neurospora crassa. PMID:28696922
PpMID1 Plays a Role in the Asexual Development and Virulence of Phytophthora parasitica. PMID:28469602
Elucidation of the calcineurin-Crz1 stress response transcriptional network in the human fungal pathogen Cryptococcus neoformans. PMID:28376087
SilkPathDB: a comprehensive resource for the study of silkworm pathogens. PMID:28365723
Increase of Fungal Pathogenicity and Role of Plant Glutamine in Nitrogen-Induced Susceptibility (NIS) To Rice Blast. PMID:28293247
Connecting virulence pathways to cell-cycle progression in the fungal pathogen Cryptococcus neoformans. PMID:28265742
Landscape of genomic diversity and host adaptation in Fusarium graminearum. PMID:28231761
Distinctive Nuclear Localization Signals in the Oomycete Phytophthora sojae. PMID:28210240
Online Databases for Taxonomy and Identification of Pathogenic Fungi and Proposal for a Cloud-Based Dynamic Data Network Platform. PMID:28179406
Metadata Analysis of Phanerochaete chrysosporium Gene Expression Data Identified Common CAZymes Encoding Gene Expression Profiles Involved in Cellulose and Hemicellulose Degradation. PMID:28123349
A fast and robust protocol for metataxonomic analysis using RNAseq data. PMID:28103917
Responses of Aspergillus flavus to Oxidative Stress Are Related to Fungal Development Regulator, Antioxidant Enzyme, and Secondary Metabolite Biosynthetic Gene Expression. PMID:28066369
Integrated Activity and Genetic Profiling of Secreted Peptidases in Cryptococcus neoformans Reveals an Aspartyl Peptidase Required for Low pH Survival and Virulence. PMID:27977806
Gene Expression and Silencing Studies in Phytophthora infestans Reveal Infection-Specific Nutrient Transporters and a Role for the Nitrate Reductase Pathway in Plant Pathogenesis. PMID:27936244
Investigating Conservation of the Cell-Cycle-Regulated Transcriptional Program in the Fungal Pathogen, Cryptococcus neoformans. PMID:27918582
EuPathDB: the eukaryotic pathogen genomics database resource. PMID:27903906
EumicrobeDBLite: a lightweight genomic resource and analytic platform for draft oomycete genomes. PMID:27785876
Glycoside hydrolases family 20 (GH20) represent putative virulence factors that are shared by animal pathogenic oomycetes, but are absent in phytopathogens. PMID:27716041
Microbe-ID: an open source toolbox for microbial genotyping and species identification. PMID:27602267
The roles of zinc and copper sensing in fungal pathogenesis. PMID:27327380
Transposable Elements versus the Fungal Genome: Impact on Whole-Genome Architecture and Transcriptional Profiles. PMID:27294409
Deacetylation of Fungal Exopolysaccharide Mediates Adhesion and Biofilm Formation. PMID:27048799
Gene Network Polymorphism Illuminates Loss and Retention of Novel RNAi Silencing Components in the Cryptococcus Pathogenic Species Complex. PMID:26943821
Comprehensive curation and analysis of fungal biosynthetic gene clusters of published natural products. PMID:26808821
Comparisons of Ribosomal Protein Gene Promoters Indicate Superiority of Heterologous Regulatory Sequences for Expressing Transgenes in Phytophthora infestans. PMID:26716454
The Immunoreactive Exo-1,3-β-Glucanase from the Pathogenic Oomycete Pythium insidiosum Is Temperature Regulated and Exhibits Glycoside Hydrolase Activity. PMID:26263509
A Tool Set for the Genome-Wide Analysis of Neurospora crassa by RT-PCR. PMID:26248984
Control of mRNA Stability in Fungi by NMD, EJC and CBC Factors Through 3'UTR Introns. PMID:26048019
Databases for Microbiologists. PMID:26013493
A simple method for semi-random DNA amplicon fragmentation using the methylation-dependent restriction enzyme MspJI. PMID:25887558
A non-canonical RNA silencing pathway promotes mRNA degradation in basal Fungi. PMID:25875805
Impact of Protein Palmitoylation on the Virulence Potential of Cryptococcus neoformans. PMID:25862155
Essential gene discovery in the basidiomycete Cryptococcus neoformans for antifungal drug target prioritization. PMID:25827419
The low information content of Neurospora splicing signals: implications for RNA splicing and intron origin. PMID:25805857
Novel and unique domains in aminoacyl-tRNA synthetases from human fungal pathogens Aspergillus niger, Candida albicans and Cryptococcus neoformans. PMID:25479903
The Pathogen-Host Interactions database (PHI-base): additions and future developments. PMID:25414340
The Eukaryotic Pathogen Databases: a functional genomic resource integrating data from human and veterinary parasites. PMID:25388105
diArk--the database for eukaryotic genome and transcriptome assemblies in 2014. PMID:25378341
Unisexual reproduction reverses Muller's ratchet. PMID:25217049
Transcriptome analysis of the entomopathogenic oomycete Lagenidium giganteum reveals putative virulence factors. PMID:25107973
Literature-based gene curation and proposed genetic nomenclature for cryptococcus. PMID:24813190
Analysis of the genome and transcriptome of Cryptococcus neoformans var. grubii reveals complex RNA expression and microevolution leading to virulence attenuation. PMID:24743168
Discovering functions of unannotated genes from a transcriptome survey of wild fungal isolates. PMID:24692637
The Cryptococcus neoformans transcriptome at the site of human meningitis. PMID:24496797
EuPathDB: the eukaryotic pathogen database. PMID:23175615
The function and evolution of the Aspergillus genome. PMID:23084572 -
Literature-based gene curation and proposed genetic nomenclature for cryptococcus
PubMed citations: 10.
10 articles citing: Literature-based gene curation and proposed genetic nomenclature for cryptococcus
Genome-wide functional analysis of phosphatases in the pathogenic fungus Cryptococcus neoformans. PMID:32839469
The enigmatic role of fungal annexins: the case of Cryptococcus neoformans. PMID:31140968
Cdk8 and Ssn801 Regulate Oxidative Stress Resistance and Virulence in Cryptococcus neoformans. PMID:30755515
Estimating the Intra-taxa Diversity, Population Genetic Structure, and Evolutionary Pathways of Cryptococcus neoformans and Cryptococcus gattii. PMID:29740480
Tracing Genetic Exchange and Biogeography of Cryptococcus neoformans var. grubii at the Global Population Level. PMID:28679543
Integrated Activity and Genetic Profiling of Secreted Peptidases in Cryptococcus neoformans Reveals an Aspartyl Peptidase Required for Low pH Survival and Virulence. PMID:27977806
Systematic functional analysis of kinases in the fungal pathogen Cryptococcus neoformans. PMID:27677328
A Single Protein S-acyl Transferase Acts through Diverse Substrates to Determine Cryptococcal Morphology, Stress Tolerance, and Pathogenic Outcome. PMID:25970403
Systematic functional profiling of transcription factor networks in Cryptococcus neoformans. PMID:25849373
Essential gene discovery in the basidiomycete Cryptococcus neoformans for antifungal drug target prioritization. PMID:25827419 -
Database whiplash, crowdsourcing, and FungiDB
PubMed citations: 0.
0 articles citing: Database whiplash, crowdsourcing, and FungiDB
- http://dx.doi.org/10.1093/nar/GKR918
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citation
metasource: Fairsharing.org
version: FAIRsharing.org: FungiDB; Fungal and Oomycete genomics resource; DOI: https://doi.org/10.25504/FAIRsharing.xf30yc; Last edited: Feb. 23, 2021, 3:50 p.m.; Last accessed: Jan 03 2022 7:08 p.m.
crowdsourcing
metasource: Fairsharing.org
version: FAIRsharing.org: FungiDB; Fungal and Oomycete genomics resource; DOI: https://doi.org/10.25504/FAIRsharing.xf30yc; Last edited: Feb. 23, 2021, 3:50 p.m.; Last accessed: Jan 03 2022 7:08 p.m.
dna sequence data
metasource: Fairsharing.org
version: FAIRsharing.org: FungiDB; Fungal and Oomycete genomics resource; DOI: https://doi.org/10.25504/FAIRsharing.xf30yc; Last edited: Feb. 23, 2021, 3:50 p.m.; Last accessed: Jan 03 2022 7:08 p.m.
free text
metasource: Fairsharing.org
version: FAIRsharing.org: FungiDB; Fungal and Oomycete genomics resource; DOI: https://doi.org/10.25504/FAIRsharing.xf30yc; Last edited: Feb. 23, 2021, 3:50 p.m.; Last accessed: Jan 03 2022 7:08 p.m.
gene ontology enrichment
metasource: Fairsharing.org
version: FAIRsharing.org: FungiDB; Fungal and Oomycete genomics resource; DOI: https://doi.org/10.25504/FAIRsharing.xf30yc; Last edited: Feb. 23, 2021, 3:50 p.m.; Last accessed: Jan 03 2022 7:08 p.m.
gene model annotation
metasource: Fairsharing.org
version: FAIRsharing.org: FungiDB; Fungal and Oomycete genomics resource; DOI: https://doi.org/10.25504/FAIRsharing.xf30yc; Last edited: Feb. 23, 2021, 3:50 p.m.; Last accessed: Jan 03 2022 7:08 p.m.
gene name
metasource: Fairsharing.org
version: FAIRsharing.org: FungiDB; Fungal and Oomycete genomics resource; DOI: https://doi.org/10.25504/FAIRsharing.xf30yc; Last edited: Feb. 23, 2021, 3:50 p.m.; Last accessed: Jan 03 2022 7:08 p.m.
genetic polymorphism
metasource: Fairsharing.org
version: FAIRsharing.org: FungiDB; Fungal and Oomycete genomics resource; DOI: https://doi.org/10.25504/FAIRsharing.xf30yc; Last edited: Feb. 23, 2021, 3:50 p.m.; Last accessed: Jan 03 2022 7:08 p.m.
orthologous
metasource: Fairsharing.org
version: FAIRsharing.org: FungiDB; Fungal and Oomycete genomics resource; DOI: https://doi.org/10.25504/FAIRsharing.xf30yc; Last edited: Feb. 23, 2021, 3:50 p.m.; Last accessed: Jan 03 2022 7:08 p.m.
phenotype
metasource: Fairsharing.org
version: FAIRsharing.org: FungiDB; Fungal and Oomycete genomics resource; DOI: https://doi.org/10.25504/FAIRsharing.xf30yc; Last edited: Feb. 23, 2021, 3:50 p.m.; Last accessed: Jan 03 2022 7:08 p.m.
protein domain
metasource: Fairsharing.org
version: FAIRsharing.org: FungiDB; Fungal and Oomycete genomics resource; DOI: https://doi.org/10.25504/FAIRsharing.xf30yc; Last edited: Feb. 23, 2021, 3:50 p.m.; Last accessed: Jan 03 2022 7:08 p.m.
protein identification
metasource: Fairsharing.org
version: FAIRsharing.org: FungiDB; Fungal and Oomycete genomics resource; DOI: https://doi.org/10.25504/FAIRsharing.xf30yc; Last edited: Feb. 23, 2021, 3:50 p.m.; Last accessed: Jan 03 2022 7:08 p.m.
protein localization
metasource: Fairsharing.org
version: FAIRsharing.org: FungiDB; Fungal and Oomycete genomics resource; DOI: https://doi.org/10.25504/FAIRsharing.xf30yc; Last edited: Feb. 23, 2021, 3:50 p.m.; Last accessed: Jan 03 2022 7:08 p.m.
protein targeting
metasource: Fairsharing.org
version: FAIRsharing.org: FungiDB; Fungal and Oomycete genomics resource; DOI: https://doi.org/10.25504/FAIRsharing.xf30yc; Last edited: Feb. 23, 2021, 3:50 p.m.; Last accessed: Jan 03 2022 7:08 p.m.
rna sequencing
metasource: Fairsharing.org
version: FAIRsharing.org: FungiDB; Fungal and Oomycete genomics resource; DOI: https://doi.org/10.25504/FAIRsharing.xf30yc; Last edited: Feb. 23, 2021, 3:50 p.m.; Last accessed: Jan 03 2022 7:08 p.m.
single nucleotide polymorphism
metasource: Fairsharing.org
version: FAIRsharing.org: FungiDB; Fungal and Oomycete genomics resource; DOI: https://doi.org/10.25504/FAIRsharing.xf30yc; Last edited: Feb. 23, 2021, 3:50 p.m.; Last accessed: Jan 03 2022 7:08 p.m.
genomics databases (non-vertebrate)
metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657
fungal genome databases
metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657
chip
metasource: re3data.org
version: re3data.org: FungiDB; editing status 2021-09-02; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R35K9M last accessed: 2022-11-04
chip - chip
metasource: re3data.org
version: re3data.org: FungiDB; editing status 2021-09-02; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R35K9M last accessed: 2022-11-04
dna
metasource: re3data.org
version: re3data.org: FungiDB; editing status 2021-09-02; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R35K9M last accessed: 2022-11-04
fair
metasource: re3data.org
version: re3data.org: FungiDB; editing status 2021-09-02; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R35K9M last accessed: 2022-11-04
rna
metasource: re3data.org
version: re3data.org: FungiDB; editing status 2021-09-02; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R35K9M last accessed: 2022-11-04
gene metrics
metasource: re3data.org
version: re3data.org: FungiDB; editing status 2021-09-02; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R35K9M last accessed: 2022-11-04
genome sequences
metasource: re3data.org
version: re3data.org: FungiDB; editing status 2021-09-02; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R35K9M last accessed: 2022-11-04
isolates
metasource: re3data.org
version: re3data.org: FungiDB; editing status 2021-09-02; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R35K9M last accessed: 2022-11-04
metabolic pathways
metasource: re3data.org
version: re3data.org: FungiDB; editing status 2021-09-02; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R35K9M last accessed: 2022-11-04
microarray
metasource: re3data.org
version: re3data.org: FungiDB; editing status 2021-09-02; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R35K9M last accessed: 2022-11-04
organisms
metasource: re3data.org
version: re3data.org: FungiDB; editing status 2021-09-02; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R35K9M last accessed: 2022-11-04
proteomics
metasource: re3data.org
version: re3data.org: FungiDB; editing status 2021-09-02; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R35K9M last accessed: 2022-11-04
quantitative proteomics
metasource: re3data.org
version: re3data.org: FungiDB; editing status 2021-09-02; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R35K9M last accessed: 2022-11-04
reagents
metasource: re3data.org
version: re3data.org: FungiDB; editing status 2021-09-02; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R35K9M last accessed: 2022-11-04
strains
metasource: re3data.org
version: re3data.org: FungiDB; editing status 2021-09-02; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R35K9M last accessed: 2022-11-04
Tags
More detailed information about this field from each metasource.
citation
metasource: Fairsharing.orgversion: FAIRsharing.org: FungiDB; Fungal and Oomycete genomics resource; DOI: https://doi.org/10.25504/FAIRsharing.xf30yc; Last edited: Feb. 23, 2021, 3:50 p.m.; Last accessed: Jan 03 2022 7:08 p.m.
crowdsourcing
metasource: Fairsharing.orgversion: FAIRsharing.org: FungiDB; Fungal and Oomycete genomics resource; DOI: https://doi.org/10.25504/FAIRsharing.xf30yc; Last edited: Feb. 23, 2021, 3:50 p.m.; Last accessed: Jan 03 2022 7:08 p.m.
dna sequence data
metasource: Fairsharing.orgversion: FAIRsharing.org: FungiDB; Fungal and Oomycete genomics resource; DOI: https://doi.org/10.25504/FAIRsharing.xf30yc; Last edited: Feb. 23, 2021, 3:50 p.m.; Last accessed: Jan 03 2022 7:08 p.m.
free text
metasource: Fairsharing.orgversion: FAIRsharing.org: FungiDB; Fungal and Oomycete genomics resource; DOI: https://doi.org/10.25504/FAIRsharing.xf30yc; Last edited: Feb. 23, 2021, 3:50 p.m.; Last accessed: Jan 03 2022 7:08 p.m.
gene ontology enrichment
metasource: Fairsharing.orgversion: FAIRsharing.org: FungiDB; Fungal and Oomycete genomics resource; DOI: https://doi.org/10.25504/FAIRsharing.xf30yc; Last edited: Feb. 23, 2021, 3:50 p.m.; Last accessed: Jan 03 2022 7:08 p.m.
gene model annotation
metasource: Fairsharing.orgversion: FAIRsharing.org: FungiDB; Fungal and Oomycete genomics resource; DOI: https://doi.org/10.25504/FAIRsharing.xf30yc; Last edited: Feb. 23, 2021, 3:50 p.m.; Last accessed: Jan 03 2022 7:08 p.m.
gene name
metasource: Fairsharing.orgversion: FAIRsharing.org: FungiDB; Fungal and Oomycete genomics resource; DOI: https://doi.org/10.25504/FAIRsharing.xf30yc; Last edited: Feb. 23, 2021, 3:50 p.m.; Last accessed: Jan 03 2022 7:08 p.m.
genetic polymorphism
metasource: Fairsharing.orgversion: FAIRsharing.org: FungiDB; Fungal and Oomycete genomics resource; DOI: https://doi.org/10.25504/FAIRsharing.xf30yc; Last edited: Feb. 23, 2021, 3:50 p.m.; Last accessed: Jan 03 2022 7:08 p.m.
orthologous
metasource: Fairsharing.orgversion: FAIRsharing.org: FungiDB; Fungal and Oomycete genomics resource; DOI: https://doi.org/10.25504/FAIRsharing.xf30yc; Last edited: Feb. 23, 2021, 3:50 p.m.; Last accessed: Jan 03 2022 7:08 p.m.
phenotype
metasource: Fairsharing.orgversion: FAIRsharing.org: FungiDB; Fungal and Oomycete genomics resource; DOI: https://doi.org/10.25504/FAIRsharing.xf30yc; Last edited: Feb. 23, 2021, 3:50 p.m.; Last accessed: Jan 03 2022 7:08 p.m.
protein domain
metasource: Fairsharing.orgversion: FAIRsharing.org: FungiDB; Fungal and Oomycete genomics resource; DOI: https://doi.org/10.25504/FAIRsharing.xf30yc; Last edited: Feb. 23, 2021, 3:50 p.m.; Last accessed: Jan 03 2022 7:08 p.m.
protein identification
metasource: Fairsharing.orgversion: FAIRsharing.org: FungiDB; Fungal and Oomycete genomics resource; DOI: https://doi.org/10.25504/FAIRsharing.xf30yc; Last edited: Feb. 23, 2021, 3:50 p.m.; Last accessed: Jan 03 2022 7:08 p.m.
protein localization
metasource: Fairsharing.orgversion: FAIRsharing.org: FungiDB; Fungal and Oomycete genomics resource; DOI: https://doi.org/10.25504/FAIRsharing.xf30yc; Last edited: Feb. 23, 2021, 3:50 p.m.; Last accessed: Jan 03 2022 7:08 p.m.
protein targeting
metasource: Fairsharing.orgversion: FAIRsharing.org: FungiDB; Fungal and Oomycete genomics resource; DOI: https://doi.org/10.25504/FAIRsharing.xf30yc; Last edited: Feb. 23, 2021, 3:50 p.m.; Last accessed: Jan 03 2022 7:08 p.m.
rna sequencing
metasource: Fairsharing.orgversion: FAIRsharing.org: FungiDB; Fungal and Oomycete genomics resource; DOI: https://doi.org/10.25504/FAIRsharing.xf30yc; Last edited: Feb. 23, 2021, 3:50 p.m.; Last accessed: Jan 03 2022 7:08 p.m.
single nucleotide polymorphism
metasource: Fairsharing.orgversion: FAIRsharing.org: FungiDB; Fungal and Oomycete genomics resource; DOI: https://doi.org/10.25504/FAIRsharing.xf30yc; Last edited: Feb. 23, 2021, 3:50 p.m.; Last accessed: Jan 03 2022 7:08 p.m.
genomics databases (non-vertebrate)
metasource: Nucleic Acid Research database catalogueversion: extracted_at: 2022-11-04T11:16:25.468657
fungal genome databases
metasource: Nucleic Acid Research database catalogueversion: extracted_at: 2022-11-04T11:16:25.468657
chip
metasource: re3data.orgversion: re3data.org: FungiDB; editing status 2021-09-02; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R35K9M last accessed: 2022-11-04
chip - chip
metasource: re3data.orgversion: re3data.org: FungiDB; editing status 2021-09-02; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R35K9M last accessed: 2022-11-04
dna
metasource: re3data.orgversion: re3data.org: FungiDB; editing status 2021-09-02; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R35K9M last accessed: 2022-11-04
fair
metasource: re3data.orgversion: re3data.org: FungiDB; editing status 2021-09-02; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R35K9M last accessed: 2022-11-04
rna
metasource: re3data.orgversion: re3data.org: FungiDB; editing status 2021-09-02; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R35K9M last accessed: 2022-11-04
gene metrics
metasource: re3data.orgversion: re3data.org: FungiDB; editing status 2021-09-02; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R35K9M last accessed: 2022-11-04
genome sequences
metasource: re3data.orgversion: re3data.org: FungiDB; editing status 2021-09-02; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R35K9M last accessed: 2022-11-04
isolates
metasource: re3data.orgversion: re3data.org: FungiDB; editing status 2021-09-02; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R35K9M last accessed: 2022-11-04
metabolic pathways
metasource: re3data.orgversion: re3data.org: FungiDB; editing status 2021-09-02; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R35K9M last accessed: 2022-11-04
microarray
metasource: re3data.orgversion: re3data.org: FungiDB; editing status 2021-09-02; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R35K9M last accessed: 2022-11-04
organisms
metasource: re3data.orgversion: re3data.org: FungiDB; editing status 2021-09-02; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R35K9M last accessed: 2022-11-04
proteomics
metasource: re3data.orgversion: re3data.org: FungiDB; editing status 2021-09-02; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R35K9M last accessed: 2022-11-04
quantitative proteomics
metasource: re3data.orgversion: re3data.org: FungiDB; editing status 2021-09-02; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R35K9M last accessed: 2022-11-04
reagents
metasource: re3data.orgversion: re3data.org: FungiDB; editing status 2021-09-02; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R35K9M last accessed: 2022-11-04
strains
metasource: re3data.orgversion: re3data.org: FungiDB; editing status 2021-09-02; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R35K9M last accessed: 2022-11-04
citation crowdsourcing dna sequences free text gene ontology enrichment gene model annotation gene name polymorphism orthology phenotype protein domain protein identification protein localization protein targeting rna sequence single nucleotide polymorphism genomics fungal genome chip chip - chip dna rna gene metrics genome sequences isolates metabolic and signaling pathways microarray organisms proteomics quantitative proteomics reagents strains
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