Phenoscape Project This ontology holds classes, properties, and axioms used in the data model for the Phenoscape Knowledgebase (KB). In some cases these elements may be very specific to implementation details of the KB web application. In other cases a class or property may be included here as a placeholder, with the intent to migrate the concept to the proper community ontology once its utility is better understood. These factors contribute to the result that this ontology will appear to be a grab bag of sometimes unrelated concepts. Phenoscape Knowledgebase vocabulary This property relates a class to another class which is defined as its complement. This annotation is used by some ad hoc reasoning code in situations where it is not feasible to use a real reasoner that supports ObjectComplementOf. negation of class part of has part has_state belongs_to_TU The axiom "inverse (has_state) o belongs_to_TU o denotes SubPropertyOf denotes" seems to be tripping up ELK, so it has been temporarily removed. denotes inheres in homologous to develops from inheres in part of towards true true contains clade has ancestor has ancestor to members has descendant has member has part inhering in Relates a clade to a somewhat hypothetical member organism that possesses traits which are ancestral to all members of the clade. has progenitor implies presence of A very general relation used for a "model-free" tagging approach to annotation. involves Relates a phylogenetic character to state values that may be held by CharacterStateDatums in a matrix. If generally useful this property could be migrated to CDAO. may have state value member of phenotype of phenotype of reflexive part of reflexive develops from reflexive part of subclade of Character CharacterStateDomain organism A phenotypic quality exhibited by a particular organism in a described context, such as mutation or experimental manipulation. A statement that a gene is associated with an organism possessing a given phenotype, perhaps through mutation or experimental manipulation. true James P. Balhoff