The Ontology of Immune Epitopes (ONTIE) is an effort to represent terms in the immunology domain in a formal ontology with the specific goal of representing experiments that identify and characterize immune epitopes. It has been developed in conjunction with the Ontology for Biomedical Investigations (OBI) and The Immune Epitope Database and Analysis Resource (IEDB). ONTIE has been developed to be compatible with the OBI ontology as well as other ontologies that are part of the Open Biomedical Ontologies (OBO) Foundry.
ONTIE covers terms regarding immune responses, adaptive immune receptors, immune epitope assays, MHC molecules, and infectious diseases.
ONTIE is (at this development stage) a virtual ontology, drawing together terms from multiple reference ontologies. We are actively working on adding more terms to ONTIE either through term requests or through active contribution to external ontologies.
Formal ontologies are carefully constructed systems of terminology that are designed to help humans and machines search and analyze information, and reason about the world. ONTIE applies formal ontology tools and techniques to immunology. By integrating with existing ontologies in related scientific domains we expand the scope and power of ONTIE.
- The Ontology for Biomedical Investigations (OBI) covers scientific investigations, assays, and specimens. Terms for immunogen, antigen, and epitope have been integrated into OBI.
- The Gene Ontology (GO) has three main branches: biological process, cellular component, and molecular function.
- Chemical Entities of Biological Interest (ChEBI) is an ontology containing a wide range of chemical entities and roles for chemicals.
- The Information Artifact Ontology applies to data and documents.
- We use the NCBI Organismal Classification for organisms, the Foundational Model of Anatomy for anatomy, and the Cell Type Ontology (CL) to classify cells.
- The Basic Formal Ontology (BFO) is a common upper-level ontology used to ensure effective integration among OBO ontologies for various domains.
Wherever possible we seek to integrate ONTIE with high-quality scientific ontologies such as these.