The Phenoscape Knowledgebase: tools and APIs for computing across phenotypes from evolutionary diversity and model organisms

I. Introduction I. Introduction II. Data ingestion and... III. Semantic similarity... IV. Web service interfaces V. Applications VI. Conclusion References The Phenoscape Knowledgebase (KB) is an ontology-driven database that combines existing phenotype annotations from model organism databases with new phenotype annotations from the evolutionary literature. Phenoscape curators have created phenotype annotations for more than 5,000 species and higher taxa, by defining computable phenotype concepts for more than 20,000 character states from over 160 published phylogenetic studies. These phenotype concepts are in the form of Entity-Quality (EQ) [1] compositions which incorporate terms from the Uberon anatomy ontology, the Biospatial Ontology (BSPO), and the Phenotype and T ...