SNOMED CT® Release Format 1 (RF1) Guide - ihtsdo

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346 | SNOMED CT Release Format 1 (RF1) Guide July 2012 4.5.5.2.3. Generating a transitive closure table There are various ways in which a transitive closure table can be generated. The method illustrated here represents the smallest SQL query that might be used for this purpose. It is not the most efficient query and may take several hours to run. However, it does offer a simple standard for comparing the results of alternative approaches. Table 260: Sample SQL for Deriving a Transitive Closure Table -- Create simple sct_transitive closure table -- This version uses varchar for string ConceptId values -- An alternative would be to use bigint using the 64-bit integer representation CREATE TABLE [sct_transitiveclosure] ( [SubtypeId] [varchar] (18) COLLATE Latin1_General_CI_AS NOT NULL , [SupertypeId] [varchar] (18) COLLATE Latin1_General_CI_AS NOT NULL , CONSTRAINT [PK_sct_transitiveclosure] PRIMARY KEY CLUSTERED ( [SubtypeId] [SupertypeId], ) ) -- Add inverted index CREATE INDEX [IX_sct_transitiveclosure] ON [dbo].[sct_transitiveclosure]([SupertypeId]) -- Initial row creation self reference INSERT INTO [sct_transitiveclosure]([SupertypeId], [SubtypeId]) SELECT [ConceptId], [ConceptId] FROM [sct_concepts] -- Further row creation WHILE @@ROWCOUNT>0 -- Repeats while new rows are created by the following query INSERT INTO [sct_transitiveclosure] ([SupertypeId], [SubtypeId]) SELECT distinct [ConceptId2],[tc].[SubtypeId] FROM [sct_relationships] INNER JOIN [sct_transitiveclosure] as tc ON [ConceptId1]=[tc].[SupertypeId] LEFT OUTER JOIN [sct_transitiveclosure] As tc2 ON [ConceptId2]=[tc2].[SupertypeId] AND [tc].[SubtypeId]=[tc2].[SubtypeId] WHERE [RelationshipType]='116680003' AND [tc2].[SubtypeId] is null © 2002-2012 International Health Terminology Standards Development Organisation CVR #: 30363434
4.5.5.2.4. Using the transitive closure table to check subsumption The following SQL query illustrates a simple way to use the transitive closure table for testing subsumption. In practice , this type of clause would be included in a more complex query allowing many candidates and predicates to be tested as a condition of retrieval in a single query. Table 261: Sample SQL for Applying a Transitive Closure Table SELECT * FROM TransitiveClosure AS tc WHERE [tc].[Supertype]= [predicate - concept].[conceptId] AND [tc].[SubtypeId]=[candidate - concept].[conceptId] Unless storage capacity is a significant constraint, a pre-computed transitive closure table appears to out-perform other options and is robust, flexible and easy to implement. 4.6. Supporting Selective Data Retrieval This section addresses the types of terminology service that are required to enable effective use of the SNOMED CT hierarchies and definitions when retrieving data. Please refer to Supporting Selective Data Retrieval in the revised Terminology services Guide for Release Format 2. 4.7. Terminology Server Software This section outlines the possible characteristics of software that provides Terminology services through a programmable interface. Such software represents an approach to development that may enable more rapid implementation of SNOMED CT. This guide does not specify a particular Application Programming Interface (API) for accessing SNOMED CT services. Instead it sets out the general principles and options for delivery and use of a terminology server. 4.7.1. Terminology server functionality A terminology server should be able to deliver all the essential Terminology services identified in the Terminology Services Guide (RF1). It should also provide the recommended Terminology services and should achieve a performance that meets the more general requirements for the functionality of SNOMED CT enabled applications. Terminology server may provide two types of service: • Reference Services (see Figure 54): Terminology services Guide (RF1) | 347 • Services that do not include a user interface; • The client application may use reference services to undertake many different functions; • For some of these functions the client application will populate an appropriate user interface component. © 2002-2012 International Health Terminology Standards Development Organisation CVR #: 30363434
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SNOMED CT ® Release Format 1 (RF1)
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Contents | 3 Release Format 1 - Det
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Chapter 1 Preface The purpose of th
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Table 3: Document Types Type Name a
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IHTSDO Glossary (DRAFT) • On line
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Chapter 2 Structure and Content Gui
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Figure 1: Multiple levels of granul
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Table 5: Example: Defining arthriti
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The full definitions of the concept
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Other components (i.e. Relationship
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2.1.2.2.1.3. Linking related Concep
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• Local content requirements that
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Consistent representation is a prer
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Figure 8: Abstract logical model of
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1. As originally stated: : • | Ha
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2.2.1.3.2.3.1. Supertype aspects of
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Figure 11: Example hierarchy with l
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Concept E F G H J K L M Note: Compr
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Concept M List of proximal primitiv
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Table 11: Non-redundant attribute v
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G. | Severe upper limb laceration |
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As a result of this limitation some
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2.2.1.4.3. Historical relationships
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2.2.2.1.1.2. Refinement attribute n
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2.2.2.1.4.3. Use of "unapproved att
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Interim recommendations 1. Wherever
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2.2.2.3.1. Close-to-user expression
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It is important to note that combin
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2.2.2.3.6.1. Example of equivalent
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Figure 25: Alternative expressions
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Figure 27: Possible expressions of
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Figure 28: SCTID Short Format - App
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PartitionId 05 Description A Cross
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SctId 999999990989121104 2.3.2.9. T
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2.3.3.2. Specification for Namespac
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2.3.3.3.1.4. Procedures 2.3.3.3.1.4
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1. Every Concept in an Extension:
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Table 17: Processing Transfers betw
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In May 2008, the HL7 Version 3 Stan
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An expression supports combinations
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digitNonZero= %x31-39 The first cha
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excision of left fallopian tube. No
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This existential restriction is lab
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• In order to generate the OWL ve
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• Though there are many candidate
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2.3.7.2.2.1. Single byte encoding C
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9 0 9 Table 29: The full array for
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else {document.getElementById("out"
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http://www.augustana.ab.ca/~mohrj/a
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version. It seems unwise to prevent
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Table DescDualKey Table ConcDualKey
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The IHTSDO recognizes that, while i
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3.2.2. Release Format 1 - Structure
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3.2.3.2. Core Tables Data - Structu
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Data Fields InitialCapitalStatus De
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3.2.4.1. Subset Mechanism - Structu
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Data Fields ContextId 3.2.4.2.2. Su
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Subset SNOMED CT Top Level Navigati
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• as a combination of codes; •
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Table 41: Cross Mapping Tables Cros
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Table 44: Cross Map Targets Table K
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The History Mechanism is also used
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In addition, the ReferencedId field
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Table Descriptions Descriptions Rel
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Table 49: Relationships depending o
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Table 51: Changes to Relationships
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Table 52: Changes to Relationships
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• The only Relationships that it
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ComponentId ConceptId ReleaseVersio
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A readme.txt file is distributed wi
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Value 6 10 11 Limited Moved elsewhe
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As new concepts are added to SNOMED
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Table 73: DescriptionStatus Values
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3.2.9.2.2.4. InitialCapitalStatus T
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3.2.9.3. relationships tables Each
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3.2.9.3.2.3. ConceptId2 Table 84: -
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An integer value that expresses an
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3.2.9.4.1.2.4. SubsetType Table 95:
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A string that identifies a Context
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3.2.9.4.2.1.2. Data Fields Table 10
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• MemberStatus 3.2.9.4.2.3.1.1. S
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3.2.9.4.2.4.1.3. MemberStatus Table
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3.2.9.4.2.5.2. Data Fields Table 11
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3.2.9.4.2.7.1.1. SubsetId Table 124
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3.2.9.4.2.8.1.3. MemberStatus Table
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3.2.9.4.3. Subset Definition File P
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3.2.9.5.1.2.3. MapSetSchemeId Table
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This discussion of rules is include
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3.2.9.5.1.3.2.3. MapRule Table 151:
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3.2.9.5.1.4.2.3. TargetRule Table 1
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RELAT_NMS = column in the LOINC tab
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The value of the SNOMED CT / LOINC
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The SNOMED CT Relationships Table e
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LOINC Analyte Name(s) DESMETHYLAMIO
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LOINC Analyte Name(s) COMPLEMENT IC
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The information provided includes d
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3.2.9.6.4.1.2. ReleaseVersion Table
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Value 6 7 8 9 10 11 Note: Name Limi
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3.2.9.6.5.1.1. ComponentId Table 17
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Release Format 1 is represents a sn
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RF1 Descriptions Table Descriptions
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Table 177: Concepts Table Use of re
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Use of recommended additional indic
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Use of recommended additional indic
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Table 184: Cross Map Sets Table Use
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Keys Partition Size Type Field Name
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Table 192: Word Equivalents Table U
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3.2.10. The Stated relationships ta
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Figure 41: Overview of Cross Map Sc
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Table 197: Cross Maps Sets Table Ma
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Table 201: Cross Maps Sets Table Ma
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Table 205: Cross Map Sets Table Map
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If this approach is followed, there
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This approach allows a more consist
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1. A record may contain many record
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• Temporally related to the selec
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CONCEPTID 95333004 7119001 95336007
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CONCEPTID 109778006 109788007 15270
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CONCEPTID 417163006 417746004 12820
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CONCEPTID 102706005 1677001 9145400
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CONCEPTID 399023006 399154007 39905
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CONCEPTID 399306005 399239005 39937
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CONCEPTID 125086000 78678003 388393
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CONCEPTID 339008 47002008 128419007
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CONCEPTID 16817006 15367004 1580700
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CONCEPTID 14509009 39250009 8627300
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CONCEPTID 122868007 122465003 78817
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CONCEPTID 19207007 74923002 6639100
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CONCEPTID 54305003 84100007 3216600
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CONCEPTID 255496004 255499006 24646
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CONCEPTID 62834003 5668004 34810001
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CONCEPTID 53224005 4150005 74636004
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CONCEPTID 47538007 19359003 3011000
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3.2.13. Enumerated values Value 0 1
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Table and Field Subsets SubsetType
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3.3. Release Format 2 Update Guide
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• The Release Format should minim
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3.3.3.4. Backward compatibility The
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3.3.4.5. Field Ordering Records in
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externalised structures such as Ref
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ContextId If either the RealmId fie
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eplaced by more descriptive ones if
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descriptions associated with concep
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Figure 45: Illustration of module d
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was inactivated. Each Reference ind
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Finally, add members to the Referen
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3.4.1. File Naming Convention - Ove
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Page 363 and 364: TargetId A SNOMED CT Identifier tha
Page 365: WordText A field in the Word Equiva
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