title: An Extended SNOMED CT Concept Model for Observations in Molecular Genetics.
abstract: Molecular genetics laboratory reports are multiplying and increasingly of clinical importance in diagnosis and treatment of cancer, infectious disease and managing of public health. Little of this data is structured or maintained in the EHR in format useful for decision support or research. Structured, computable reporting is limited by non-availability of a domain ontology for these data. The IHTSDO and Regenstrief Institute(RI) have been collaborating since 2008 to develop a unified concept model and ontology of observable entities - concepts which represent the results of laboratory and clinical observations. In this paper we report the progress we have made to apply that unified concept model to the structured recording of observations in clinical molecular genetic pathology including immunohistochemistry and sequence variant findings. The primary use case for deployment is the structured and coded reporting of Cancer checklist
authors.affiliation: University of Nebraska Medical Center, Omaha NE USA.
authors.forename: James R
authors.initials: JR
authors.lastname: Campbell
authors.affiliation: University of Nebraska Medical Center, Omaha NE USA.
authors.forename: Geoffrey
authors.initials: G
authors.lastname: Talmon
authors.affiliation: University of Nebraska Medical Center, Omaha NE USA.
authors.forename: Allison
authors.initials: A
authors.lastname: Cushman-Vokoun
authors.affiliation: Department of Biomedical Engineering, Linköping University; Linköping, Sweden.
authors.forename: Daniel
authors.initials: D
authors.lastname: Karlsson
authors.affiliation: University of Nebraska Medical Center, Omaha NE USA.
authors.forename: W
authors.initials: W
authors.lastname: Scott Campbell
mesh_terms: D014408:Biomarkers, Tumor; D063990:Gene Ontology; D006801:Humans; D039703:Logical Observation Identifiers Names and Codes; D008962:Models, Theoretical; D008967:Molecular Biology / Q000145:classification; D039061:Systematized Nomenclature of Medicine
chemical_list: D014408:Biomarkers, Tumor