17,522
edits
Main Page: Difference between revisions
→Introduction
| Line 1: | Line 1: | ||
== Introduction == | == Introduction == | ||
This project aims to describe symbiotic interactions between protists and prokaryotes as structured data. | |||
Envisioned use cases include: | |||
* Taxonomy of | * Search and browse symbiotic interactions by biological taxonomy, leveraging cross-references to external taxonomies (e.g. NCBI Taxonomy, Catalogue of Life) | ||
* Find interactions that are described in earlier literature but not yet studied with modern methods | |||
* Programatically find new literature to update the database, by querying the NCBI databases using linked NCBI taxon IDs | |||
* Share data with [https://www.globalbioticinteractions.org/ GloBI] through periodic data exports | |||
Interactions are described with the following statements, roughly aligned with the GloBI terms: | |||
* Taxonomy of hosts and symbionts, with links to external databases (primarily NCBI) | |||
* Localization of symbionts in cellular compartments of the host cell, using Gene Ontology terms | * Localization of symbionts in cellular compartments of the host cell, using Gene Ontology terms | ||
* Nature of biotic interactions, if this is known, using Relation Ontology terms (although there are some limitations in this ontology for describing mutualistic interactions) | * Nature of biotic interactions, if this is known, using Relation Ontology terms (although there are some limitations in this ontology for describing mutualistic interactions) | ||
* Analytical methods used to study the symbioses | * Analytical methods used to study the symbioses | ||
This project originated as part of my [http://nbn-resolving.de/urn:nbn:de:gbv:46-00106172-12 doctoral dissertation] (2017). | |||
==Explore the data== | ==Explore the data== | ||