Package org.biopax.paxtools.model.level3

Interface ExperimentalForm

All Superinterfaces:
BioPAXElement, Cloneable, Level3Element, Serializable, UtilityClass
All Known Implementing Classes:
ExperimentalFormImpl
public interface ExperimentalForm extends UtilityClass
Definition: The form of a physical entity in a particular experiment, as it may be modified for purposes of experimental design. Examples: A His-tagged protein in a binding assay. A protein can be tagged by multiple tags, so can have more than 1 experimental form type terms

  • Method Details

    • getExperimentalFormDescription

      Set<ExperimentalFormVocabulary> getExperimentalFormDescription()
      Descriptor of this experimental form from a controlled vocabulary. The contents of this set should not be modified. Use add/remove methods instead.
      Returns:
      a CV term from PSI-MI participant identification methdod, experimental role, experimental preparation.

    • addExperimentalFormDescription

      void addExperimentalFormDescription(ExperimentalFormVocabulary experimentalFormType)
      Adds an experimental form description.
      Parameters:
      experimentalFormType - descriptor of this experimental form from a controlled vocabulary.

    • removeExperimentalFormDescription

      void removeExperimentalFormDescription(ExperimentalFormVocabulary experimentalFormType)
      Removes an experimental form description.
      Parameters:
      experimentalFormType - descriptor of this experimental form from a controlled vocabulary.

    • getExperimentalFormEntity

      Entity getExperimentalFormEntity()
      Returns:
      The gene or physical entity that this experimental form describes.

    • setExperimentalFormEntity

      void setExperimentalFormEntity(Entity newPARTICIPANT)

    • getExperimentalFeature

      Set<EntityFeature> getExperimentalFeature()
      Contents of this set should not be modified. Please use add/remove methods instead.
      Returns:
      A feature of the experimental form of the participant of the interaction, such as a protein tag. It is not expected to occur in vivo or be necessary for the interaction.

    • addExperimentalFeature

      void addExperimentalFeature(EntityFeature experimentalFeature)
      This method adds an experimental feature
      Parameters:
      experimentalFeature - of the experimental form of the participant of the interaction, such as a protein tag. It is not expected to occur in vivo or be necessary for the interaction.

    • removeExperimentalFeature

      void removeExperimentalFeature(EntityFeature experimentalFeature)
      This method removes an experimental feature
      Parameters:
      experimentalFeature - of the experimental form of the participant of the interaction, such as a protein tag. It is not expected to occur in vivo or be necessary for the interaction.