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Eukaryotic Pathogen, Vector and Host Informatics Resource (VEuPathDB)

Compounds and reactionsBioassays and chemical biologyMaterials and polymersImages and microscopy

The Eukaryotic Pathogen, Vector and Host Informatics Resource (VEuPathDB) focuses on eukaryotic pathogens and invertebrate vectors of infectious diseases, , encompassing data from prior resources devoted to parasitic species (EuPathDB), fungi (FungiDB) and vector species (VectorBase). While each of the taxonomic groups within this resource is supported by a taxon-specific database built upon the same infrastructure, the EuPathDB portal offers an entry point to all of these resources, and the opportunity to leverage orthology for searches across genera.

Website
Record in FAIRsharing (doi:10.25504/FAIRsharing.f94905)
Subjects: Applied Microbiology, Bioinformatics, Biology, Biomedical Science, Biotechnology, Cell Biology, Clinical Studies, Comparative Genomics, Computational Biology, Data Management, Data Mining, Data Quality, Database Management, Entomology, Epidemiology, Epigenetics, Epigenomics, Evolutionary Biology, Functional Genomics, Genomics, Health Science, Immunology, Infectious Disease Medicine, Medical Microbiology, Metabolomics, Metagenomics, Metatranscriptomics, Microbial Genetics, Microbiology, Molecular Genetics, Molecular Infection Biology, Molecular Microbiology, Molecular biology, Omics, Parasitology, Phenomics, Phylogenetics, Phylogenomics, Population Genetics, Proteogenomics, Proteomics, Public Health, Quantitative Genetics, Structural Biology, Structural Genomics, Systems Biology, Transcriptomics, Tropical Medicine

Documentation, events and training

bio.tools API and tool documentation

VEuPathDB (same name)

TeSS Events (4)

Pathogen research through VEuPathDB resources 2021-10-11
Running a Galaxy workflow and integrating data into VEuPathDB 2020-05-14
Running a Galaxy workflow and integrating data into VEuPathDB 2020-05-14
Running a Galaxy workflow and integrating data into VEuPathDB 2020-05-14

What is known per question

The questions of the decision tree, with what FAIRsharing says about this repository. ✓ supported, ✗ excluded, ? not known.

What kind of data do you want to archive?

? Spectra
? Crystal structures
? Computational chemistry
? Catalysis
✓ Compounds and reactions
✓ Bioassays and chemical biology
✓ Materials and polymers
✓ Images and microscopy
? Something else

Subjects: Applied Microbiology; Bioinformatics; Biology; Biomedical Science; Biotechnology; Cell Biology; Clinical Studies; Comparative Genomics; Computational Biology; Data Management; Data Mining; Data Quality; Database Management; Entomology; Epidemiology; Epigenetics; Epigenomics; Evolutionary Biology; Functional Genomics; Genomics; Health Science; Immunology; Infectious Disease Medicine; Medical Microbiology; Metabolomics; Metagenomics; Metatranscriptomics; Microbial Genetics; Microbiology; Molecular Genetics; Molecular Infection Biology; Molecular Microbiology; Molecular biology; Omics; Parasitology; Phenomics; Phylogenetics; Phylogenomics; Population Genetics; Proteogenomics; Proteomics; Public Health; Quantitative Genetics; Structural Biology; Structural Genomics; Systems Biology; Transcriptomics; Tropical Medicine

Domains: Annotation; Biobank; Biocuration; Biospecimen; C-terminal amino-acid residue; CDS; Cellular Assay; ChIP-seq assay; Clustering; Codon usage table; Cytogenetic map; DNA methylation; DNA sequence; DNA sequencing assay; Data acquisition; Data analysis; Data identity and mapping; Data retrieval; Differential gene expression profiling; Evolution; Experimental measurement; Expression data; FAIR; Function analysis; GO-term enrichment data; Gene functional annotation; Gene name; Gene prediction; Gene report; Genetic Marker; Genetic Polymorphism; Genetic map; Genome alignment; Genome annotation; Genome assembly; Genome map; Genome visualisation; Genome, Mitochondrial; Geographic location; Model organisms; Multiple sequence alignment; N-terminal amino-acid residue; Network analysis; Next Generation Sequencing; Nucleic acid property; Nucleic acid sequence; Nucleic acid sequence alignment; PCR primers; Peptide Library; Peptide property; Physical map; Post-translational modification site prediction; Prediction and recognition; Protein Analysis; Protein Expression; Protein domain; Protein identification; Protein image; Protein interactions; Protein name; Protein structure; Quality Control; Quantification; RNA modification; RNA secondary structure; RNA sequence; RNA splicing; RNA-seq assay; RNAi screen; Rare Disorder; Raw microarray data; Resource metadata; SNP; Sample annotation; Sequence annotation; Sequence cluster; Sequence composition, complexity and repeats; Sequence length; Sequence position; Sequence similarity; Structure; Structure alignment (pair); Structure-based sequence alignment; Taxonomic classification; Text mining; Transcription Factor; Transcription factor binding site prediction; Transmembrane protein prediction; UTR; Validation; allele; allele frequency; alternative mRNA splicing, via spliceosome; assay; binding site; biological_process; blood; carbohydrate; cell; cell line; cellular localization; cellular_component; chromatin binding; chromosomal region; chromosome; chromosome structure variation; chromosome, centromeric region; contig; copy number variation; cystolic 16S rRNA; data transformation; deoxyribonucleic acid; digital curation; disease; disease phenotype; enzyme; exon; experimentally determined; flanking region; functional domain; gene; gene expression; gene model annotation; genome; genome-wide association study; genotype; histone; homologous; host; infection process; infectious disease; intron; lncRNA; mRNA; malaria; metabolite; miRNA; microarray assay; microbiome; microsatellite; microscopy; mitochondrial sequence; mitochondrion; mobile genetic element; molecular_function; ncRNA; nucleic acid; nucleotide; nucleus; organelle; orthologous; paralogous; pathogen; peptide; phenotype; plasmid; plastid; plastid sequence; polymerase chain reaction; polypeptide region; post-translational protein modification; primer; promoter; protein; protein expression profiling assay; protein folding; protein localization; proteome; pseudogene; read; reference genome; region; regulatory region; ribonucleic acid; ribosomal RNA; sequence alignment; sequence feature; sequence motif; sequence variant; sequencing assay; signal peptide; splice site; tRNA; tandem repeat; transcript; translation; translational initiation; transposable element; tropical; whole genome sequencing assay