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

More documents

Recommendations

Info

138 | SNOMED CT Release Format 1 (RF1) Guide July 2012 distinction between items rendered inactive by the process of developing the SNOMED CT First Release and those that were already non-current in the source terminologies. 3.2.8. Distribution Files 3.2.8.1. Distribution Media The SNOMED CT International Release is distributed to most Affiliates by an IHTSDO Member National Release Center . The core files are in the standard flat file structure for healthcare terminology. See the readme.txt file for a complete list of files included in the release. These files can be loaded into the specific file or database system used at your location. 3.2.8.2. File Formats SNOMED CT files are UTF-8 encoded to support character sets from around the world. Some database products, such as Oracle, require UTF-8 to be specified in advance; if UTF-8 is not specified, there may be some difficulty with using and displaying the special characters used in some of the terms. Note that these special characters are used occasionally in the SNOMED CT English language edition, as well as in non-English editions. Some English languagemedical terms are eponyms, based on the name of an individual, which may contain special characters. The file format standard used starting in 2002 is now called "Release Format One" or RF1. There is now a draft format that will eventually replace it, known as "Release Format Two" or RF2. During the testing and transition phase, files in both formats may be available, and therefore it is important to have a file naming convention that distinguished them. This is done using the number 1 or 2 in the FileType Element. As an example, here is the file name of the concepts file for the January 2010 release, in the current Release Format (RF1): • sct1_Concepts_Core_INT_20100131.txt. The various parts of the concepts table name are given in the table below: Table 61: File Naming Elements Element FileType ContentType ContentSubType Country or Namespace Version Date Extension Value sct1 Concepts Core INT 20100131 txt Explanation A terminology data file in Release Format 1 The data rows each represent a concept The file is part of the International Release (Release Format 1) The file is part of the International Release an 8-digit number in the pattern "YYYYMMDD", in compliance with the ISO 8601 standard The file is in text format © 2002-2012 International Health Terminology Standards Development Organisation CVR #: 30363434
A readme.txt file is distributed with each release. It contains a full list of all files and file sizes. 3.2.8.3. Directory Structures and Naming Conventions Where compressed files are used for distribution, each archive may contain multiple files and subdirectories. The archives are named to reflect the types of files they contain, the YYYYMMDD version, and the file extension ".zip". For example, SNOMED_CT_International_Release_20070731_essential.zip was the name for the distributed zip archive for the essential files in the July 2007 release. Note that National Releases of SNOMED CT distributed by Member National Release Centers may use different directory structures and contain additional files. 3.2.8.4. Terminology version information • Information about the current release is contained in a Description for the Root Concept Code. • The Description carrying this information is a Synonym (DescriptionType =2) and its status is current (DescriptionStatus =0). • The Description conveying version information for each release has a unique DescriptionId (i.e. it is not a revision of a previous versioning Description). • In each release there is only one Preferred Term and one current"version" Synonym associated with the Root Concept. All previous version Synonyms are non- current (DescriptionStatus =1). • The information in the "version" synonym is represented in the Term field as follows: • SNOMED Clinical Terms version: YYYYMMDD [status] (description): • status represents a word indicating of whether this is a release [R] or has some other status (e.g. for development set [D], evaluation [E], etc.). • yyyymmdd represents the release date in ISO format. • description is a textual description of the release (optional). • For example: SNOMED CT 20020131 [R]. • Other synonyms may be active for the Root Concept Code. SNOMED CT enabled applicationsmust make this version information synonym visible, along with copyright and other similar information about the terminology. 3.2.9. Release Format 1 - Detailed specification 3.2.9.1. Concepts Table Each row in the Concepts Table represents a clinical concept. Each Concept has a unique Identifier of the concept and a Fully Specified Name specifying the nature of the concept. 3.2.9.1.1. Key Fields Table 62: - Concepts Table Key Fields ConceptId Field Type SCTID Permitted characters Digits 0 to 9 only Release File Formats | 139 Length 6 to 18 © 2002-2012 International Health Terminology Standards Development Organisation CVR #: 30363434
Page 1 and 2:
SNOMED CT ® Release Format 1 (RF1)
Page 3 and 4:
Contents | 3 Release Format 1 - Det
Page 5 and 6:
Chapter 1 Preface The purpose of th
Page 7 and 8:
Table 3: Document Types Type Name a
Page 9 and 10:
IHTSDO Glossary (DRAFT) • On line
Page 11 and 12:
Chapter 2 Structure and Content Gui
Page 13 and 14:
Figure 1: Multiple levels of granul
Page 15 and 16:
Table 5: Example: Defining arthriti
Page 17 and 18:
The full definitions of the concept
Page 19 and 20:
Other components (i.e. Relationship
Page 21 and 22:
2.1.2.2.1.3. Linking related Concep
Page 23 and 24:
• Local content requirements that
Page 25 and 26:
Consistent representation is a prer
Page 27 and 28:
Figure 8: Abstract logical model of
Page 29 and 30:
1. As originally stated: : • | Ha
Page 31 and 32:
2.2.1.3.2.3.1. Supertype aspects of
Page 33 and 34:
Figure 11: Example hierarchy with l
Page 35 and 36:
Concept E F G H J K L M Note: Compr
Page 37 and 38:
Concept M List of proximal primitiv
Page 39 and 40:
Table 11: Non-redundant attribute v
Page 41 and 42:
G. | Severe upper limb laceration |
Page 43 and 44:
As a result of this limitation some
Page 45 and 46:
2.2.1.4.3. Historical relationships
Page 47 and 48:
2.2.2.1.1.2. Refinement attribute n
Page 49 and 50:
2.2.2.1.4.3. Use of "unapproved att
Page 51 and 52:
Interim recommendations 1. Wherever
Page 53 and 54:
2.2.2.3.1. Close-to-user expression
Page 55 and 56:
It is important to note that combin
Page 57 and 58:
2.2.2.3.6.1. Example of equivalent
Page 59 and 60:
Figure 25: Alternative expressions
Page 61 and 62:
Figure 27: Possible expressions of
Page 63 and 64:
Figure 28: SCTID Short Format - App
Page 65 and 66:
PartitionId 05 Description A Cross
Page 67 and 68:
SctId 999999990989121104 2.3.2.9. T
Page 69 and 70:
2.3.3.2. Specification for Namespac
Page 71 and 72:
2.3.3.3.1.4. Procedures 2.3.3.3.1.4
Page 73 and 74:
1. Every Concept in an Extension:
Page 75 and 76:
Table 17: Processing Transfers betw
Page 77 and 78:
In May 2008, the HL7 Version 3 Stan
Page 79 and 80:
An expression supports combinations
Page 81 and 82:
digitNonZero= %x31-39 The first cha
Page 83 and 84:
excision of left fallopian tube. No
Page 85 and 86:
This existential restriction is lab
Page 87 and 88: • In order to generate the OWL ve
Page 89 and 90: • Though there are many candidate
Page 91 and 92: 2.3.7.2.2.1. Single byte encoding C
Page 93 and 94: 9 0 9 Table 29: The full array for
Page 95 and 96: else {document.getElementById("out"
Page 97 and 98: http://www.augustana.ab.ca/~mohrj/a
Page 99 and 100: version. It seems unwise to prevent
Page 101 and 102: Table DescDualKey Table ConcDualKey
Page 103 and 104: The IHTSDO recognizes that, while i
Page 105 and 106: 3.2.2. Release Format 1 - Structure
Page 107 and 108: 3.2.3.2. Core Tables Data - Structu
Page 109 and 110: Data Fields InitialCapitalStatus De
Page 111 and 112: 3.2.4.1. Subset Mechanism - Structu
Page 113 and 114: Data Fields ContextId 3.2.4.2.2. Su
Page 115 and 116: Subset SNOMED CT Top Level Navigati
Page 117 and 118: • as a combination of codes; •
Page 119 and 120: Table 41: Cross Mapping Tables Cros
Page 121 and 122: Table 44: Cross Map Targets Table K
Page 123 and 124: The History Mechanism is also used
Page 125 and 126: In addition, the ReferencedId field
Page 127 and 128: Table Descriptions Descriptions Rel
Page 129 and 130: Table 49: Relationships depending o
Page 131 and 132: Table 51: Changes to Relationships
Page 133 and 134: Table 52: Changes to Relationships
Page 135 and 136: • The only Relationships that it
Page 137: ComponentId ConceptId ReleaseVersio
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 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
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
Page 229 and 230:
1. A record may contain many record
Page 231 and 232:
• Temporally related to the selec
Page 233 and 234:
CONCEPTID 95333004 7119001 95336007
Page 235 and 236:
CONCEPTID 109778006 109788007 15270
Page 237 and 238:
CONCEPTID 417163006 417746004 12820
Page 239 and 240:
CONCEPTID 102706005 1677001 9145400
Page 241 and 242:
CONCEPTID 399023006 399154007 39905
Page 243 and 244:
CONCEPTID 399306005 399239005 39937
Page 245 and 246:
CONCEPTID 125086000 78678003 388393
Page 247 and 248:
CONCEPTID 339008 47002008 128419007
Page 249 and 250:
CONCEPTID 16817006 15367004 1580700
Page 251 and 252:
CONCEPTID 14509009 39250009 8627300
Page 253 and 254:
CONCEPTID 122868007 122465003 78817
Page 255 and 256:
CONCEPTID 19207007 74923002 6639100
Page 257 and 258:
CONCEPTID 54305003 84100007 3216600
Page 259 and 260:
CONCEPTID 255496004 255499006 24646
Page 261 and 262:
CONCEPTID 62834003 5668004 34810001
Page 263 and 264:
CONCEPTID 53224005 4150005 74636004
Page 265 and 266:
CONCEPTID 47538007 19359003 3011000
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
Page 273 and 274:
• The Release Format should minim
Page 275 and 276:
3.3.3.4. Backward compatibility The
Page 277 and 278:
3.3.4.5. Field Ordering Records in
Page 279 and 280:
externalised structures such as Ref
Page 281 and 282:
ContextId If either the RealmId fie
Page 283 and 284:
eplaced by more descriptive ones if
Page 285 and 286:
descriptions associated with concep
Page 287 and 288:
Figure 45: Illustration of module d
Page 289 and 290:
was inactivated. Each Reference ind
Page 291 and 292:
Finally, add members to the Referen
Page 293 and 294:
3.4.1. File Naming Convention - Ove
Page 295 and 296:
• Test/Beta Release File("xsct",
Page 297 and 298:
In certain cases, an RF1 data file
Page 299 and 300:
VersionDate refers to the official,
Page 301 and 302:
Example: Excluding the Fully Specif
Page 303 and 304:
4.2.1.3. Pre-processing of distribu
Page 305 and 306:
• Reject, highlight or apply othe
Page 307 and 308:
Table 236: Essential concept Identi
Page 309 and 310:
The purpose of this section of the
Page 311 and 312:
Table 240: Example results for a Se
Page 313 and 314:
• For each dual key, add rows to
Page 315 and 316:
• Description104951019 is elimina
Page 317 and 318:
4.4.1.4.1. Avoiding multiple hits o
Page 319 and 320:
Table 248: Relationship Example Con
Page 321 and 322:
• Since the depth of the hierarch
Page 323 and 324:
4.4.2.5. Using navigation Subsets t
Page 325 and 326:
Table 253: Concepts used in the Exa
Page 327 and 328:
SubsetId Mem
Page 329 and 330:
• 302402006 | radius and/or ulna
Page 331 and 332:
Now we have tree nodes and their ch
Page 333 and 334:
Subsets may be used to derive table
Page 335 and 336:
• One Subset can be used as the b
Page 337 and 338:
• A Context Concept Subset only r
Page 339 and 340:
• A Navigation Subset specifies a
Page 341 and 342:
• A RealmID identifies the specia
Page 343 and 344:
4.5. Testing and traversing subtype
Page 345 and 346:
This approach removes the need for
Page 347 and 348:
4.5.5.2.4. Using the transitive clo
Page 349 and 350:
Figure 55: Terminology server provi
Page 351 and 352:
A field in the Component History Ta
Page 353 and 354:
Cross maps table A data table consi
Page 355 and 356:
• References Table Inactive compo
Page 357 and 358:
A field in the Cross Maps Table tha
Page 359 and 360:
A Subset that specifies sets of Nav
Page 361 and 362:
A field in the Concepts Table that
Page 363 and 364:
TargetId A SNOMED CT Identifier tha
Page 365:
WordText A field in the Word Equiva
show all

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

You also want an ePaper? Increase the reach of your titles

Delete template?

Save as template?