These notes are for BINF 4003 - Methods III: Symbolic Methods, taught in the Fall of 2019 at Columbia University.
Introduction: What are symbolic methods? Data-Information-Knowledge hierarchy, interoperability, “curly braces problem”.
Knowledge representation: Medical knowledge representations, closed vs open world assumptions, reference vs interface terminologies, pre- vs post-coordination.
Desiderata for medical vocabularies: Characteristics of high-quality controlled medical vocabularies.
Specific terminologies and tools
- SNOMED-CT: Design, structure, limitations, adoption, SNOMED clinical terms (SNOMED CT).
ICD: Design, structure, limitations, adoption, versions: ICD-9, ICD-10, ICD-11.
UMLS: Three knowledge sources: Metathesaurus, Semantic Network, SPECIALIST Lexicon and Lexical Tools. Purpose, data sources, use cases.
RxNorm: Design, structure, data sources, use cases. RxNorm vs RxTerm.