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

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222 | SNOMED CT Release Format 1 (RF1) Guide July 2012 Topography codes are needed by cancer registries to identify the site of the tumor . The topography terms of SNOMED CT are more extensive and are not identical to the topography section of ICD-O. SNOMED CT includes codes not found in ICD-O; for example, SNOMED CT has specific codes for paired anatomic structures for laterality such as left breast while ICD-O does not. In addition, SNOMED CT includes terms expressed more specifically than in ICD-O such as "subcutaneous and other soft tissues of lower limb and hip" in ICD-O. And finally, SNOMED CT includes more terms than those needed to identify cancer sites; for example, "nail" is unmappable to ICD-O because the nail is not a site for neoplastic disease. Reportable cancer cases can also be identified by SNOMED CT codes describing tumor morphology and behavior for reportable neoplasms. The ICD-O morphology codes correspond directly with codes that are in the SNOMEDID field of the Concepts Table. The five-digit ICD-O morphology number (including the final digit behavior code) always begins with 8 or 9, and corresponds exactly to one SNOMEDID number that follows the M and the dash. In other words, the row of the Concepts Table that corresponds to a given ICD-O morphology code (including the behavior code but without the forward slash) can be identified by an exact match to a SNOMEDID that begins with M-8 or M-9. For example, the ICD-O code 8140/3 corresponds to SNOMEDID code M-81403. This correspondence is one-to-one for each published ICD-O-3 morphology code, and for this reason, no separate mapping table is necessary for ICD-O morphology. As a historical note, the morphology correspondence has been maintained in this way continuously since the publication of SNOMED Edition 2 in 1979. Further back, the origin of the correspondence is based on the common codes found in SNOP (1965) and MOTNAC, the precursor of ICD-O version 1. However, the SNOP codes had four digits rather than five. The topography mapping from ICD-O to SNOMED CT was a collaborative effort between the College of American Pathologists (CAP), the Centers for Disease Control and Prevention (CDC) and the National Cancer Institute (NCI).The IHTSDO would like to acknowledge and offer special thanks to Daniel S. Miller, MD, MPH, former head of the Division of Cancer Prevention and Control, CDC and Mary L. Lerchen, DrPH, MS, Public Health Practice Program Office, CDC who initiated this effort on behalf of cancer registries. 3.2.11.3.1. SNOMED CT to ICD-O Cross Mapping - Example The following example shows how this mapping is delivered. 3.2.11.3.1.1. Gastric fundus structure This example involves SNOMED Clinical Terms concept Gastric fundus structure to the ICD-O classification represented by the code “C16.1”. This concept is active in the SNOMED CT Concept Table. Table 204: ConceptsTable ConceptId 414003 ConceptStatus The relevant classification is ICD-O. 0 FullySpecified Name | gastric fundus structure (body structure) | CTV3ID X7551 SNOMEDID T-57400 Is Primitive MapSet Type = 1 means that all maps are one-to-one mappings.The SNOMED CT concept is never duplicated in more than one row; that is, each concept has one and only one map. © 2002-2012 International Health Terminology Standards Development Organisation CVR #: 30363434 1
Table 205: Cross Map Sets Table Map SetId 102041 Map Set Name ICD-O-3 Map Set Type 1 MapSet SchemeId 2.16.840.1.1 13883.6.5.2.2 MapSetS cheme Name International Classification of Diseases for Oncology, 3rd Edition Fields marked with an asterisk are not currently used in SNOMED CT. Table 206: Cross Maps Table MapSetId 102041 MapConceptId 414003 MapOption * 0 MapPriority * Map Set Scheme Version 2001 MapTargetId 2977055 Fields marked with an asterisk are not currently used in SNOMED CT. 1 Map Set RealmId * | MapRule * Map Set Separator Map Set Rule Type* MapAdvice The TargetCodes are an approximation of the closest ICD-O codes or codes (C16.1) that best represent the SNOMED CT concept. Table 207: Cross Map Target Table TargetId 2977055 TargetSchemeId 2.16.840.1.11 3883.6.5.2.2 TargetCodes C16.1 Fields marked with an asterisk are not currently used in SNOMED CT. 3.2.11.4. SNOMED CT - LOINC TargetRule * TargetAdvice * Please see SNOMED CT - LOINC Integration Table (3.2.9.5.1.5) for details about SNOMED CT - LOINC integration. 3.2.11.5. Cross Mapping Rules The objective of the MapRule fields is to allow addition of machine-processable instructions that then allow automated cross mappings even in cases where there is more than one way to map a particular SNOMED CT Concept. For Concepts with several alternative Cross Maps, the rules contained in each Cross Map should be checked to determine which is most appropriate in the context of a particular patient record. This section provides an initial syntax of mapping rules and discussion of some possible variants. Formats | 223 Caution: Please contact the IHTSDO before using the rules document in this section. Recent work has been done on planning for rules-based maps to ICD-9-CM and ICD-10, which may result in a substantial revision of this section. © 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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Page 173 and 174: 3.2.9.5.1.2.3. MapSetSchemeId Table
Page 175 and 176: This discussion of rules is include
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Page 179 and 180: 3.2.9.5.1.4.2.3. TargetRule Table 1
Page 181 and 182: RELAT_NMS = column in the LOINC tab
Page 183 and 184: The value of the SNOMED CT / LOINC
Page 185 and 186: The SNOMED CT Relationships Table e
Page 187 and 188: LOINC Analyte Name(s) DESMETHYLAMIO
Page 189 and 190: LOINC Analyte Name(s) COMPLEMENT IC
Page 191 and 192: The information provided includes d
Page 193 and 194: 3.2.9.6.4.1.2. ReleaseVersion Table
Page 195 and 196: Value 6 7 8 9 10 11 Note: Name Limi
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Page 199 and 200: Release Format 1 is represents a sn
Page 201 and 202: RF1 Descriptions Table Descriptions
Page 203 and 204: Table 177: Concepts Table Use of re
Page 205 and 206: Use of recommended additional indic
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Page 211 and 212: Keys Partition Size Type Field Name
Page 213 and 214: Table 192: Word Equivalents Table U
Page 215 and 216: 3.2.10. The Stated relationships ta
Page 217 and 218: Figure 41: Overview of Cross Map Sc
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Page 225 and 226: If this approach is followed, there
Page 227 and 228: This approach allows a more consist
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Page 231 and 232: • Temporally related to the selec
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Page 267 and 268: 3.2.13. Enumerated values Value 0 1
Page 269 and 270: Table and Field Subsets SubsetType
Page 271 and 272: 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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• Test/Beta Release File("xsct",
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In certain cases, an RF1 data file
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VersionDate refers to the official,
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Example: Excluding the Fully Specif
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4.2.1.3. Pre-processing of distribu
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• Reject, highlight or apply othe
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Table 236: Essential concept Identi
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The purpose of this section of the
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Table 240: Example results for a Se
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• For each dual key, add rows to
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• Description104951019 is elimina
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4.4.1.4.1. Avoiding multiple hits o
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Table 248: Relationship Example Con
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• Since the depth of the hierarch
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4.4.2.5. Using navigation Subsets t
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Table 253: Concepts used in the Exa
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SubsetId Mem
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• 302402006 | radius and/or ulna
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Now we have tree nodes and their ch
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Subsets may be used to derive table
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• One Subset can be used as the b
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• A Context Concept Subset only r
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• A Navigation Subset specifies a
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• A RealmID identifies the specia
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4.5. Testing and traversing subtype
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This approach removes the need for
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4.5.5.2.4. Using the transitive clo
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Figure 55: Terminology server provi
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A field in the Component History Ta
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Cross maps table A data table consi
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• References Table Inactive compo
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A field in the Cross Maps Table tha
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A Subset that specifies sets of Nav
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A field in the Concepts Table that
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TargetId A SNOMED CT Identifier tha
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WordText A field in the Word Equiva
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