PHI-base
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|
|---|---|
| Content | |
| Description | Pathogen-Host Interaction database |
| Data types captured |
phenotypes of microbial mutants |
| Organisms | ~250 fungal, bacterial and protist pathogens of agronomic and medical importance tested on ~170 hosts |
| Contact | |
| Research center | Rothamsted Research |
| Primary citation | PMID 27915230 |
| Release date | May 2005 |
| Access | |
| Data format | XML, FASTA |
| Website | PHI-base |
| Download URL | PHI-base Download |
| Sparql endpoint | http://linkeddata.systems:8890/sparql |
| Tools | |
| Web | PHI-base Search PHIB-BLAST PHI-Canto (Author curation) |
| Miscellaneous | |
| License | Creative Commons Attribution-NoDerivatives 4.0 International License |
| Versioning | Yes |
| Data release frequency |
6 monthly |
| Version | 4.2 (October 2016) |
| Curation policy | Manual Curation |
The Pathogen-Host Interaction database (PHI-base) contains expertly curated molecular and biological information on genes proven to affect the outcome of pathogen-host interactions. The database was created and is maintained by researchers at Rothamsted Research and external collaborators since 2005. The database and latest release is described in detail in this PDF document. Since December 2016 PHI-base is part of ELIXIR, the European life-science infrastructure for biological information via its ELIXIR-UK node.
The Pathogen-Host Interaction database (http://www.phi-base.org) was developed to utilise effectively the growing number of verified genes that mediate an organism's ability to cause disease and / or to trigger host responses.
The web-accessible database catalogues experimentally verified pathogenicity, virulence and effector genes from fungal and oomycete pathogens which infect animal, plant and fungal hosts. PHI-base is the first on-line resource devoted to the identification and presentation of information on fungal and oomycete pathogenicity genes and their host interactions. As such, PHI-base is a valuable resource for the discovery of candidate targets in medically and agronomically important fungal and oomycete pathogens for intervention with synthetic chemistries and natural products (fungicides).
Each entry in PHI-base is curated by domain experts and supported by strong experimental evidence (gene disruption experiments) as well as literature references in which the experiments are described. Each gene in PHI-base is presented with its nucleotide and deduced amino acid sequence as well as a detailed structured description of the predicted protein's function during the host infection process. To facilitate data interoperability, genes are annotated using controlled vocabularies (Gene Ontology terms, EC Numbers, etc.), and links to other external data sources such as UniProt, EMBL and the NCBI taxonomy services.
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