1 / 11

Yvonne Bradford*, Ceri Van Slyke

Ontologies in the Fish Tank: Using the Zebrafish Anatomy Ontology with other OBO Ontologies to Annotate Expression and Phenotype. Yvonne Bradford*, Ceri Van Slyke. Outline. Use of Modular Ontologies to generate post composed entities How does ZFA synchronize with the CL?.

hedda
Download Presentation

Yvonne Bradford*, Ceri Van Slyke

An Image/Link below is provided (as is) to download presentation Download Policy: Content on the Website is provided to you AS IS for your information and personal use and may not be sold / licensed / shared on other websites without getting consent from its author. Content is provided to you AS IS for your information and personal use only. Download presentation by click this link. While downloading, if for some reason you are not able to download a presentation, the publisher may have deleted the file from their server. During download, if you can't get a presentation, the file might be deleted by the publisher.

E N D

Presentation Transcript

  1. Ontologies in the Fish Tank: Using the Zebrafish Anatomy Ontology with other OBO Ontologies to Annotate Expression and Phenotype Yvonne Bradford*, Ceri Van Slyke

  2. Outline Use of Modular Ontologies to generate post composed entities How does ZFA synchronize with the CL?

  3. ZFIN has successfully used modular ontologies to generate post composed entities for expression curation and E+Q(+E) statements for phenotype curation

  4. For expression ZFIN utilizes the ZFA by itself or in conjunction with ZFA, GO-CC, and Spatial Ontologies for post composed entities

  5. For Phenotype curation ZFIN utilizes the ZFA, GO-MF, GO-BP ontologies that can be post composed with the ZFA, GO-CC, GO-MF, Spatial, or MPATH ontologies to create post composed Entities

  6. Built in restrictions for valid use of Entity + Quality terms

  7. Selecting relational quality terms automatically opens the E2 field to allow for annotation of related Entity

  8. Outline Use of Modular Ontologies to generate post composed entities How does ZFA synchronize with the CL?

  9. Effectively Synchronizing is a Challenge • What is the best way to sync ZFA and CL? • Should ZFA be MIREOTing CL? • Which format is better for syncing? OBO vs. OWL • What tools are available to sync? – We would like tools that allow for: • automatic syncing • that identify when a cycle will be created in outside ontologies • create logical defs for those terms that are added • the ability for editors to accept or reject terms that are added • the ability to revert ontology after changes are made • When syncing – what about multiple paths to root? • ZFA erythroblast is_a TAO erythroblast, is_a CL erythroblast and TAO erythroblast is_a CL erythroblast • How are multiple paths to root dealt with in syncing and do tools identify this? • How do leaf node ontologies make sure changes in higher ontologies do not cause problems in the structure of the leaf node ontology?

More Related