Using SNOMED CT with the UMLS - Medical Ontology Research

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Source transparency principle: It’s all there! • There is no loss of information in the process of insertion of a source terminology. Every element of information contained in a source is included in the release files, even though they may be organized differently • Proof of source transparency in insertion of SNOMED CT: ◦ source-derived files extracted from the original SNOMED CT files ◦ UMLS-derived files extracted from the UMLS release files in the same format as the source-derived files ◦ row-by-row comparison proved that they are identical
SNOMED CT is more complex than other terminologies • Concept-oriented: ◦ each concept contains multiple descriptions (concept names) ◦ concepts and descriptions have their own unique identifiers and sets of attributes (e.g. ConceptStatus, DescriptionType) • Relationships: ◦ defined at the concept level ◦ relationships have their own unique identifiers and set of attributes (e.g. RelationshipGroup) • Mappings to ICD9CM: ◦ in three linked tables (Cross Map Sets, Cross Maps, Cross Map Target) ◦ different sets of attributes at each level • The original release format of the UMLS Metathesaurus cannot represent all the above information
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Using SNOMED CT with the UMLS IHTSD
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Outline • Overview of the UMLS
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Overview of the UMLS Introduction
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Motivation • Started in 1986 •
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Overview of the UMLS Overview throu
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Adrenal insufficiency Clinical vari
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AD in medical vocabularies • Syno
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MeSH Disease Endocrine system disea
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SNOMED International Disease/Diagno
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SNOMED CT (UMLS view) Disorder of e
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ICD-10 Endocrine, nutritional and m
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organize concepts Disease Endocrine
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UMLS view Immune system diseases Di
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Categorize concepts • High-level
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Lexical knowledge Adrenal gland dis
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Additional knowledge: UMLS editors
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Overview of the UMLS UMLS Knowledge
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UMLS Metathesaurus
Page 37 and 38: Source Vocabularies (2011AA) • 16
Page 39 and 40: Biomedical terminologies (cont’d)
Page 41 and 42: Integrating subdomains Clinical rep
Page 43 and 44: Addison’s Disease: Concept Diseas
Page 45 and 46: Metathesaurus Evolution over time
Page 47 and 48: Symbolic relations • Relation ◦
Page 49 and 50: Everything else • Co-occurrence i
Page 51 and 52: UMLS Semantic Network
Page 53 and 54: Semantic Network • Semantic netwo
Page 55 and 56: Associative (non-isa) relationships
Page 57 and 58: Relationships may inherit semantics
Page 59 and 60: SPECIALIST Lexicon • Content ◦
Page 61 and 62: Orthography • Spelling variants
Page 63 and 64: Lexical tools • To manage lexical
Page 65 and 66: Normalization Example Hodgkin Disea
Page 67 and 68: Indexes • Word index ◦ word to
Page 69 and 70: Overview of the UMLS Conclusions
Page 71 and 72: Trans-namespace integration Addison
Page 73 and 74: Dr. Kin Wah Fung SNOMED CT integrat
Page 75 and 76: Different views of synonymy • In
Page 77 and 78: UMLS editing process • Analysis o
Page 79 and 80: Examples of split SNOMED CT synonym
Page 81 and 82: SNOMED CT Concept View Acetaminophe
Page 83 and 84: Common types of cross-hierarchy mer
Page 85 and 86: Extent of disagreement • Splittin
Page 87: Dr. Kin Wah Fung Representing SNOME
Page 91 and 92: Rich Release Format (RRF) • Also
Page 93 and 94: SNOMED CT Concepts SNOMED CT Concep
Page 95 and 96: SNOMED CT Relationships SNOMED CT R
Page 97 and 98: Dr. Olivier Bodenreider Applying UM
Page 99 and 100: Beta-blocker in SNOMED CT
Page 101 and 102: Finding variants in other sources S
Page 103 and 104: Ms. Janice H. Willis Applying UMLS
Page 105 and 106: SNOMED CT QA What we learn from mai
Page 107: UTS browser • https://uts.nlm.nih
Page 110 and 111: Search options include limiting by
Page 112 and 113: Metathesaurus Browser Tree search t
Page 114 and 115: SNOMED CT-centric display Click CUI
Page 116 and 117: Metathesaurus Browser Tree search d
Page 118: http://www.nlm.nih.gov/research/uml
Page 121 and 122: Getting started with the UTS API
Page 123 and 124: Getting a proxy granting ticket pri
Page 125 and 126: Getting a single-use proxy ticket p
Page 127 and 128: Mapping • ‘Mapping’ generally
Page 129 and 130: Mapping terms to a terminology •
Page 131 and 132: Example of synonym substitution •
Page 133 and 134: Inter-terminology mapping • Make
Page 135 and 136: The IntraMap algorithm (2) 2. A tar
Page 137 and 138: Use of MetaMap for inter-terminolog
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Motivation • Translation ◦ Seed
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Multi-lingual vocabularies in the U
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Finding terms in other languages
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Addison’s disease in UMLS
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C0001403 in Dutch Source Term type
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Dr. James T. Case Use case: The rol
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Access to the USCRS
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Dentistry SNOMED CT International 1
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Why integrate UMLS with a SCT brows
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No SNOMED CT Description Informs yo
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UMLS Concept Concept exists in ICD9
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References: UMLS home page • UMLS
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References • UMLS as a research p
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References • SNOMED CT and UMLS
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Using SNOMED CT with the UMLS - Medical Ontology Research

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