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| Interface Summary | |
| Base | General interface to be implemented by all classes to be used as BioUML diagram elements. |
| LocalisedString | |
| ProteinProperties | Defines protein properties constants. |
| Relation | Intermediary class to generalize what is common for all relations/edges as well as to define common constants. |
| SpeciesSpecific | General interface for species specific entities. |
| Type | Definition of data elemnt types (roles). |
| Class Summary | |
| BaseSupport | Base class for all data element types. |
| Biopolymer | |
| BiopolymerBeanInfo | Utility class containing common metada for all molecules. |
| Cell | Stub |
| CellBeanInfo | Utility class containing common metada for all molecules. |
| Compartment | Stub |
| CompartmentBeanInfo | |
| Concept | |
| ConceptBeanInfo | |
| ConceptBeanInfo.ConceptTypeEditor | |
| Constant | Some constant that can be used in kinetic or other equations. |
| ConstantBeanInfo | |
| DatabaseInfo | Many data elements can refer to other databases through its database references field. |
| DatabaseInfoBeanInfo | |
| DatabaseReference | General defintion of reference to external database. |
| DatabaseReferenceBeanInfo | |
| DiagramInfo | Defines common properties for diagram description. |
| DiagramInfoBeanInfo | |
| DiagramReference | |
| EditionHistory | General class defining editing history. |
| Function | Molecular function is an activity or task performed by a gene product or other biological entity. |
| FunctionBeanInfo | |
| Gene | Stub |
| GeneBeanInfo | |
| GenericEntity | |
| GenericEntityBeanInfo | Utility class containing common metada for all generic entities. |
| ImageDescriptor | |
| ImageDescriptorBeanInfo | |
| KineticLaw | |
| KineticLawBeanInfo | Utility class containing common metada for all generic entities. |
| KineticType | Definition of KinetReactionType defines: - meta information about reaction |
| KineticType.Element | This class is used to specify roles for each element in kinetic function. |
| KineticType.ElementBeanInfo | |
| KineticType.ElementBeanInfo.RoleEditor | |
| KineticTypeBeanInfo | Utility class containing common metada for all generic entities. |
| LiteratureReference | Defines coomon properties of literature reference. |
| LiteratureReferenceBeanInfo | |
| MessageBundle | |
| Molecule | |
| MoleculeBeanInfo | Utility class containing common metada for all molecules. |
| MultiLineHtmlFieldEditor | |
| Process | Biological process is a biological goal that requires more than one function. |
| ProcessBeanInfo | |
| Protein | Stub |
| ProteinBeanInfo | |
| ProteinBeanInfo.FunctionalStateEditor | |
| ProteinBeanInfo.ModificationEditor | |
| ProteinBeanInfo.StructureEditor | |
| Reaction | |
| ReactionBeanInfo | |
| Referrer | Extention of GenericEntity that contains references to other databases and literature sources. |
| ReferrerBeanInfo | |
| ReferrerBeanInfo.LiteratureReferencesEditor | |
| RelationType | Unit to specify kinetic constat, parameter or variable units. |
| RNA | Stub |
| RNABeanInfo | |
| RNABeanInfo.RnaTypeEditor | |
| SemanticRelation | SemanticRelatio specified semantic relationships between concepts (kernels) assotiated with two nodes on the diagram. |
| SemanticRelationBeanInfo | |
| SemanticRelationBeanInfo.ParticipationTypeEditor | |
| SpecieReference | SpecieReference specifies role of molecule involved in the Reaction. |
| SpecieReferenceBeanInfo | |
| SpecieReferenceBeanInfo.ModifierActionEditor | |
| SpecieReferenceBeanInfo.SpecieReferenceEditor | |
| Species | General definition for 'Species' concept. |
| State | State, stage or variant of biological system or its subunits. |
| StateBeanInfo | |
| Stub | |
| Stub.Note | |
| Stub.NoteBeanInfo | |
| Stub.NoteLink | |
| Stub.NoteLinkBeanInfo | |
| Substance | Stub |
| SubstanceBeanInfo | |
| Unit | Unit to specify kinetic constat, parameter or variable units. |
| UnitBeanInfo | |
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