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

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188 | SNOMED CT Release Format 1 (RF1) Guide July 2012 LOINC Analyte Name(s) HYDROCORTICOSTERONE 18-HYDROXYCORTICOSTERONE 11-OXOPREGNANETRIOL ANDROSTANEDIOL HYDROXYCALCIDIOL COMPLEMENT C3.NEPHRITIC COMPLEMENT C4.NEPHRITIC COMPLEMENT CLR2-CLS2 COMPLEMENT C1R2+C1S2 COMPLEMENT C'2 ESTERASE COMPLEMENT C'3 ESTERASE COMPLEMENT C'4 ESTERASE COMPLEMENT C3B.INACTIVE SNOMED CT ID Comments SNOMED CT ConceptId F-B2491 103034000 F-B2746 116617008 F-B28A0 103048000 F-BB140 1459001 F-C2402 123001009 F-C2403 123002002 F-C70D1 123000005 F-C7100 923009 F-C7150 10473000 F-C7200 65044008 F-C7171 122999009 Corticosterone is 11,21-Dihydroxypregn-4ene-3,20-dione; hydroxylation of corticosterone could commonly occur at carbons 17 and 18. If a hydroxy is added at 17 we get cortisol, and at 18 we get 18hydrocorticosterone. We assume "hydrocorticosterone" means the latter. Assume this is a class that includes 11ketopregnanetriol plus 11-hydroxy substituted pregnanetriol. Same as 3-alpha-androstanediol, a major metabolite of dihydrotestosterone. Distinct from the 3-betaisomer. Assume this is 24,25dihydroxycholecaliciferol. Calcidiol is 25hydroxycholecalciferol. The other possibility might be calcitriol, which is 1,25dihydroxycholecalciferol. Complement C3 nephritic factor, is not a complement component but an (auto)antibody which causes unregulated C3 splitting activity, usually by preventing intrinsic decay of C3bBb (F-C7640). Complement C4 nephritic factor, is not a complement component but an (auto)antibody which prevents the intrinsic decay of C4b2a (F-C7540). Assume both refer to C1r2C1s2, see Biochem J 1989 Oct 15;263(2):463-9 "The quaternary structure in solution of human complement subcomponent C1r2C1s2". Assume these mean the complement components C2, C3 and C4.The "prime" symbol (C') used in early literature has been dropped from complement nomenclature. C2, C3 and C4 are proenzymes. Could also have LOINC name "COMPLEMENT IC3B". © 2002-2012 International Health Terminology Standards Development Organisation CVR #: 30363434
LOINC Analyte Name(s) COMPLEMENT IC3 COMPLEMENT MEMBRANE C3BC4B COFACTOR PROTEIN HYDROXYTRYPTAMINE SEROTONIN L LITTLE E NOS AG ENTEROVIRUS 3.2.9.5.1.5.1. File Structure SNOMED CT ID Comments SNOMED CT ConceptId F-C7172 123004001 F-C7A10 73042005 F-CB040 33635003 F-D1300 2728001 L-30200 32697003 Could also have LOINC name "COMPLEMENT C3.INACTIVE". Also known as MCP and CD46, a "widely distributed C3b/C4b-binding glycoprotein that inhibits complement activation". Serotonin is 5-hydroxytryptamine. (5hydroxytryptophan is a precursor). There is no Le NOS antigen, but perhaps this means Lewis blood group antigen, not otherwise specified. Picornavirus group. SNOMED CT - LOINC Integration version 1.0 is provided as an ASCII tab delimited flat file. Note: There have been no additions or significant updates to this file since the release of SNOMED RT Version 1.1. Minor revisions have been made where SNOMED CT concepts have been retired and, in some cases, replaced with other concepts. The first row of the file contains column headings. Table 162: - Column Name LOINC_NUM Data Type Char Max. Length 7 Description The unique LOINC Code. 10 10 Copyright 1995-2008, Regenstrief Institute and the Logical Observation Identifier Names and Codes (LOINC ®) Committee. All rights reserved. Formats | 189 © 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
Page 137 and 138: ComponentId ConceptId ReleaseVersio
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Page 141 and 142: Value 6 10 11 Limited Moved elsewhe
Page 143 and 144: As new concepts are added to SNOMED
Page 145 and 146: Table 73: DescriptionStatus Values
Page 147 and 148: 3.2.9.2.2.4. InitialCapitalStatus T
Page 149 and 150: 3.2.9.3. relationships tables Each
Page 151 and 152: 3.2.9.3.2.3. ConceptId2 Table 84: -
Page 153 and 154: An integer value that expresses an
Page 155 and 156: 3.2.9.4.1.2.4. SubsetType Table 95:
Page 157 and 158: A string that identifies a Context
Page 159 and 160: 3.2.9.4.2.1.2. Data Fields Table 10
Page 161 and 162: • MemberStatus 3.2.9.4.2.3.1.1. S
Page 163 and 164: 3.2.9.4.2.4.1.3. MemberStatus Table
Page 165 and 166: 3.2.9.4.2.5.2. Data Fields Table 11
Page 167 and 168: 3.2.9.4.2.7.1.1. SubsetId Table 124
Page 169 and 170: 3.2.9.4.2.8.1.3. MemberStatus Table
Page 171 and 172: 3.2.9.4.3. Subset Definition File P
Page 173 and 174: 3.2.9.5.1.2.3. MapSetSchemeId Table
Page 175 and 176: This discussion of rules is include
Page 177 and 178: 3.2.9.5.1.3.2.3. MapRule Table 151:
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: LOINC Analyte Name(s) DESMETHYLAMIO
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
Page 197 and 198: 3.2.9.6.5.1.1. ComponentId Table 17
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
Page 207 and 208: Use of recommended additional indic
Page 209 and 210: Table 184: Cross Map Sets Table Use
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
Page 219 and 220: Table 197: Cross Maps Sets Table Ma
Page 221 and 222: Table 201: Cross Maps Sets Table Ma
Page 223 and 224: Table 205: Cross Map Sets Table Map
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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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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• 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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