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documentation:vocabulary:changes_from_version_4

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documentation:vocabulary:changes_from_version_4 [2015/01/20 03:13] – cgreichdocumentation:vocabulary:changes_from_version_4 [2024/09/04 13:01] (current) – Depreciation of page and posting of corresponding link in Github wiki jcruz
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 ===== Changes from Vocabulary Version 4.0 ===== ===== Changes from Vocabulary Version 4.0 =====
-The Standardized Vocabularies are undergoing a constant revision and improvement. Therefore, only significant structural changes are listed in the following. +Thank you for visiting the wiki! This page has moved to https://github.com/OHDSI/Vocabulary-v5.0/wiki/Historical-Versions.
- +
-** Changes to Conventions ** +
-  * Concept Designation as [[documentation:vocabulary:standard_classification_and_source_concepts|Standard, Classification and Source]] +
-    * **Source Concepts**: In contrast to V4.0 of the Standardized Vocabularies, there is no longer a distinction between source codes and Concepts. All source codes now have their own Concept. However, in order to distinguish between codes that are used to represent a clinical entity in the data tables, Concepts are now designated Standard Concepts or Source Concepts.  +
-    * For some vocabularies, source codes did have records in the Concept table, such as VA Product, RxNorm Concept Classes "Drug Form", SNOMED Concepts other than Condition and Procedure. These Concept had a concept_level = 0. The concept_id of these non-standard Concepts has been preserved between the versions. +
-    * **Standard Concepts**: These Concepts were available in previous versions of the Standardized Vocabularies. They were designated through a concept_level value greater than 0. The concept_id of Standard Concepts has been preserved between the versions. +
-    * **Classification Concepts**: Like the Standard Concepts, the Classification Concepts existed in V4.0 of the Standardized Vocabulary. Their concept_level was typically 3 for drug classifications, 1-5 for MedDRA (Condition Classification) and 1-2 for SNOMED Procedure Classifications. Their concept_id has been preserved as well. +
- +
-  * [[documentation:vocabulary:mapping|Mapping]] between source and Standard Concepts.  +
-    * Each source code has now a representation as a Source Concept, and the mapping is achieved through the [[documentation:cdm:concept_relationship|CONCEPT_RELATIONSHIP]] table. A new relationship_id = "Maps to" (reverse_relationship_id = "Mapped from") links the Source to the Standard Concepts.  +
-    * The [[documentation:cdm:source_to_concept_map|SOURCE_TO_CONCEPT_MAP]] table is no longer used, and therefore no longer populated in the Standardized Vocabularies. However, it still can be used to map local source codes for specific ETL procedures using non-public vocabularies not supported here. +
- +
- +
-** Changes to Tables ** +
- +
-^Table^Nature of change^ +
-|[[documentation:cdm:domain|DOMAIN]]|Newly created reference table for all Domains. Please refer to the [[documentation:vocabulary:domains_and_vocabularies|discussion]] of the Domains.| +
-|[[documentation:cdm:concept_class|CONCEPT_CLASS]]|Newly created reference table for all Concept Classes of Concepts. Please refer to the discussion of the individual Vocabularies for detais.| +
-|[[documentation:cdm:source_to_concept_map|SOURCE_TO_CONCEPT_MAP]]|No longer used for mapping of source codes to Standard Vocabularies. Instead, source codes have now a representation in the [[documentation:cdm:concept|CONCEPT]] table, and these Source Concepts are mapped to Standard Concepts using records in the [[documentation:cdm:concept_relationship|CONCEPT_RELATIONSHIP]] table "Maps to" and "Mapped from". Please refer to the [[documentation:vocabulary:mapping|discussion]] of the mapping and the individual Vocabularies for detais.| +
-|[[documentation:cdm:cohort_definition|COHORT_DEFINITION]]|Newly created reference table for the definition of Cohorts in the COHORT table. This table is not supported with standardized content, but for internal use at each CDM instance.| +
-|[[documentation:cdm:attribute_definition|ATTRIBUTE_DEFINITION]]|Newly created reference table for the definition of Cohort Attributes in the COHORT_ATTRIBUTE table. This table is not supported with standardized content, but for internal use at each CDM instance.| +
- +
-** Changes to Fields ** +
- +
-^Table^Field^Nature of change^ +
-|[[documentation:cdm:concept|CONCEPT]] and [[documentation:cdm:vocabulary|VOCABULARY]]|vocabulary_id|This is no longer a numerical but a character identifier of length 20. The character string refers to the Vocabulary in a human readable format for convenience of the analyst during querying. E.g., vocabulary_id 1 became vocabulary "SNOMED", vocabulary_id 2 became "ICD9CM". Please refer to the [[documentation:vocabulary:vocabularies|discussion]] of the Vocabularies.| +
-|[[documentation:cdm:concept|CONCEPT]]|concept_class_id|This used to be a character field called concept_class containing Concept Class as a string. Now, it contains a 20 character identifier referring to the [[documentation:cdm:concept_class|CONCEPT_CLASS]] table, similar to how Vocabularies are referred to in the vocabulary_id field. Please refer to the discussion of the individual Vocabularies for details.| +
-|[[documentation:cdm:concept|CONCEPT]]|domain_id|This is a newly added field for a 20 character identifier referring to the [[documentation:cdm:domain|DOMAIN]] table, similar to how Vocabularies are referred to in the vocabulary_id field. Please refer to the [[documentation:domains_and_vocabularies:domains|discussion]] of the Domains.| +
-|[[documentation:cdm:concept|CONCEPT]]|standard_concept|This is a newly added field designating whether the Concept is a Standard Concept ("S"), a Classification Concept ("C") or a Source Concept (NULL). Please refer to the [[documentation:vocabulary:standard_classification_and_source_concepts|discussion]] of how the Concept designation is used in practice.| +
-|[[documentation:cdm:concept|CONCEPT]]|concept_level|This field used to designate the hierarchical level within a Vocabulary or Domain, and is no longer available. Hierarchical levels only work for strictly stratified hierarchies such as RxNorm or MedDRA, and are no longer supported. Concept Level 0 used to designate non-Standard Concepts, which now is captured in the standard_concept field and explained [[documentation:vocabulary:standard_classification_and_source_concepts|here]].| +
-|[[documentation:cdm:vocabulary|VOCABULARY]]|vocabulary_reference|This is a newly added field referring to external documentation of the Vocabulary.| +
-|[[documentation:cdm:vocabulary|VOCABULARY]]|vocabulary_version|This is a newly added field capturing the version of the Vocabulary as indicated in the source.| +
-|[[documentation:cdm:vocabulary|VOCABULARY]]|vocabulary_concept_id|This is a newly added field referring to the Concept representing the Vocabulary.| +
-|[[documentation:cdm:concept_relationship|CONCEPT_RELATIONSHIP]] and [[documentation:cdm:relationship|RELATIONSHIP]]|relationship_id|This is no longer a numerical but a character identifier of length 20. The character string refers to the Relationship in a human readable format for convenience of the analyst during querying. E.g., relationship_id 10 became "Subsumes", relationship_id 353 became "Maps to". Please refer to the discussion of the Vocabularies for details of the Concept Relationships.| +
-|[[documentation:cdm:relationship|RELATIONSHIP]]|relationship_concept_id|This is a newly added field referring to the Concept representing the Relationship.| +
-|[[documentation:cdm:concept_synonym|CONCEPT_SYNONYM]]|language_concept_id|This is a newly added field referring to the Concept of the language used. Currently, only English is supported in the Standardized Vocabularies.| +
-|[[documentation:cdm:drug_strength|DRUG_STRENGTH]]|amount_unit_concept_id|This field used to be called amount_unit containing the unit as a character string. Now, it is a foreign key to the Unit Concept in the [[documentation:cdm:concept|CONCEPT]] table.| +
-|[[documentation:cdm:drug_strength|DRUG_STRENGTH]]|numerator_value|This field used to be called enumerator_value.| +
-|[[documentation:cdm:drug_strength|DRUG_STRENGTH]]|numerator_unit_concept_id|This field used to be called enumerator_unit containing the unit as a character string. Now, it is a foreign key to the Unit Concept in the [[documentation:cdm:concept|CONCEPT]] table.| +
-|[[documentation:cdm:drug_strength|DRUG_STRENGTH]]|denominator_unit_concept_id|This field used to be called denominator_unit containing the unit as a character string. Now, it is a foreign key to the Unit Concept in the [[documentation:cdm:concept|CONCEPT]] table.| +
documentation/vocabulary/changes_from_version_4.txt · Last modified: by jcruz
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