title: Automatic definition of the oncologic EHR data elements from NCIT in OWL.
abstract: Semantic interoperability based on ontologies allows systems to combine their information and process them automatically. The ability to extract meaningful fragments from ontology is a key for the ontology re-use and the construction of a subset will help to structure clinical data entries. The aim of this work is to provide a method for extracting a set of concepts for a specific domain, in order to help to define data elements of an oncologic EHR.
  
  
  METHODS
  a generic extraction algorithm was developed to extract, from the NCIT and for a specific disease (i.e. prostate neoplasm), all the concepts of interest into a sub-ontology. We compared all the concepts extracted to the concepts encoded manually contained into the multi-disciplinary meeting report form (MDMRF).
  
  
  RESULTS
  We extracted two sub-ontologies: sub-ontology 1 by using a single key concept and sub-ontology 2 by using 5 additional keywords. The coverage of sub-ontology 2 to the MDMRF concepts was 51%. The low rate of coverage is due to the lack of definition or mis-classification of the NCIT concepts. By providing a subset of concepts focused on a particular domain, this extraction method helps at optimizing the binding process of data elements and at maintaining and enriching a domain ontology.
authors: UMR 936 Inserm, Faculté de Médicine de Rennes, France.
authors: Marc
authors: M
authors: Cuggia
authors: Annabel
authors: A
authors: Bourdé
authors: Bruno
authors: B
authors: Turlin
authors: Sebastien
authors: S
authors: Vincendeau
authors: Valerie
authors: V
authors: Bertaud
authors: Catherine
authors: C
authors: Bohec
authors: Régis
authors: R
authors: Duvauferrier
mesh_terms: D000465:Algorithms; D001331:Automation; D016208:Databases, Factual; D001330:Electronic Data Processing; D057286:Electronic Health Records; D006801:Humans; D007256:Information Systems; D008297:Male; D008495:Medical Oncology / Q000379:methods*; D011471:Prostatic Neoplasms / Q000175:diagnosis / Q000628:therapy*; D015203:Reproducibility of Results; D012984:Software; D018511:Systems Integration; D009626:Terminology as Topic