This guide can provide you more background on how to read the release notes.
What's New
1. HCPCS
- The vocabulary was updated according to the version effective from July 2023.
- Visit, Provider and a number of Procedure and Observation concepts have been destandardized and mapped over to the concepts in the respective domains.
- Mapping of Drugs has been improved in its granularity and completeness.
- Domain assignment according to the domains of the target concepts has been added.
- 13 concepts that represent contrast media changed their domain from Drug to Device and became standard.
- In the course of the release 525 standard concepts previously embedded into the hierarchy of SNOMED and CPT4 have lost their hierarchical relationships as they have been mapped over to standard concepts in the respective domains and destandardized.
2. CPT4
- One CPT4 code 0174A for immunization against COVID-19 was added.
- Domain_id of two concepts was fixed as per community request.
3. CVX
- New CVX vaccines have been added (codes 518, 519, 520, 521, 231). Existing mappings were improved, which resulted in destandardization of some CVX codes that are currently mapped to corresponding vaccines in RxNorm or RxNorm Extension vocabulary.
- The Vaccine Group concept class has been introduced, showcasing how a set of related vaccines can be organized into a family for easy reference.
- New attributes were added, such as:
- ‘Has vaccine group’ relationships were added to help with vaccine grouping. Vaccines themself serve as groups, therefore there are no new concepts for vaccine groups.
- ‘Non-US’ was added to names of the vaccines in use outside of the United States
4. MeSH
- More than 300000 concepts were added during this release
- Changed of logic assignment has been changed. At the moment domains are assigned according to the following priorities:
- Domain of target concept, if mapping is available
- Domain of ancestor concept, if available
- Domain assigned according to algorithm using semantic tags
- Default domain has been set to Observation
5. NAACCR
The update brings a set of community-provided mappings for NAACCR Values to Cancer Modifer OMOP Vocabulary. The total amount of invalidated NAACCR Values is 1517. Compared to provided mappings we refactored and remapped only a minor portion (less than 200) of codes from generic Lymph node spread to Regional spread as it inherited from the Variable parent. Note, that NAACCR Variables related to those Values did not change their standardness and validity status. Please find more details on the upcoming changes page.
6. Smoking hierarchy (SNOMED, OMOP Extension)
- As was announced in upcoming changes, during this release we focused on remapping of SNOMED concepts: the smoking-related SNOMED terms were mapped to new OMOP Extension concepts. As a result of this changes, some concepts of source vocabularies (ICD9CM, Read, CIEL, etc.) lost their mapping - this will be addressed in future releases.
7. OMOP Extension
- Added concepts for ACC/AHA classification and Ross classification.
- Implemented the Critical Care Pain Observation Tool (CPOT) pain scale.
8. PPI
- The mapping of 2 concepts: sdoh_dms_1 and sdoh_dms_2 has been omitted and these concepts have been made standard as per community request. The reason for the change is imprecise mapping.
- Concept_class_id of 2 other concepts has been changed as per community request
9. RxNorm
- The vocabulary has been updated to May 2023 version
10. NDC/SPL
- The vocabulary has been updated to May 2023 version, effective from 14th of May
11. dm+d
- The vocabulary has been updated to May 2023 version, effective from 22nd of May
- Previous version of dm+d vocabulary dated back to June 2021. This gap between versions determines huge differences. Almost 18000 concepts were added during this release
- Domain detection was improved what resulted in minor changes in concepts’ domains
12. Сo-connect
- A new IQVIA proprietary vocabulary consisting of 3 parts was added.
13. Problems found during the release, but not yet fixed
- Within a recent release of HCPCS sources, code reuse appeared to happen for 36 codes. Unless the code reuse handling approach is implemented in OMOP, we preserve reused codes with old semantics.
- The idea about mapping of the concepts associated with death of a patient to the CDM table ‘Death’ is discussed in the Community and has not been addressed yet in the scope of the current release.
- In CPT4 concepts may migrate between categories and obtain new concept_codes. This results in creation of semantic duplicates within the vocabulary. As at the release v20230531 there are 71 such duplicative concepts that are to be mapped and destandardized.
- As a result of recent run of BuildRxE, more than 6000 duplicates have been created in RxNorm Extension vocabulary. They have not been used as mapping targets for dm+d vocabulary. This is a known problem, which exacerbated significantly during this release.
- We also identified inconsistencies in BuildRxE mapping algorithm that resulted in changes of drug form of target mapping concepts (Eg. concepts previously mapped to lidocaine Injectable solution changed their mapping to lidocaine injection). These changes were manually curated for dm+d vocabulary. However, the algorithm was not changed.
Domain changes
| vocabulary_id | old_domain_id | new_domain_id | count |
|---|
| CPT4 | Device | Procedure | 1 |
| CPT4 | Measurement | Procedure | 1 |
| dm+d | Device | Drug | 57 |
| dm+d | Drug | Device | 48 |
| HCPCS | Device | Drug | 6 |
| HCPCS | Device | Measurement | 1 |
| HCPCS | Device | Observation | 3 |
| HCPCS | Device | Procedure | 18 |
| HCPCS | Drug | Device | 13 |
| HCPCS | Drug | Observation | 1 |
| HCPCS | Drug | Procedure | 8 |
| HCPCS | Measurement | Procedure | 3 |
| HCPCS | Observation | Condition | 94 |
| HCPCS | Observation | Device | 1 |
| HCPCS | Observation | Drug | 3 |
| HCPCS | Observation | Procedure | 72 |
| HCPCS | Observation | Provider | 27 |
| HCPCS | Observation | Visit | 183 |
| HCPCS | Procedure | Condition | 7 |
| HCPCS | Procedure | Device | 2 |
| HCPCS | Procedure | Drug | 3 |
| HCPCS | Procedure | Measurement | 14 |
| HCPCS | Procedure | Observation | 166 |
| HCPCS | Procedure | Provider | 2 |
| HCPCS | Procedure | Visit | 31 |
| HCPCS | Provider | Observation | 3 |
| HCPCS | Provider | Visit | 2 |
| HCPCS | Visit | Observation | 1 |
| MeSH | Condition | Device | 1 |
| MeSH | Condition | Measurement | 6 |
| MeSH | Condition | Observation | 102 |
| MeSH | Condition | Procedure | 14 |
| MeSH | Condition | Spec Anatomic Site | 12 |
| MeSH | Drug | Condition | 152 |
| MeSH | Drug | Device | 9 |
| MeSH | Drug | Measurement | 10 |
| MeSH | Drug | Observation | 316 |
| MeSH | Drug | Procedure | 20 |
| MeSH | Drug | Spec Anatomic Site | 8 |
| MeSH | Measurement | Condition | 5 |
| MeSH | Measurement | Observation | 6 |
| MeSH | Measurement | Procedure | 8 |
| MeSH | Observation | Condition | 10 |
| MeSH | Observation | Measurement | 1 |
| MeSH | Observation | Procedure | 3 |
| MeSH | Procedure | Condition | 4 |
| MeSH | Procedure | Drug | 1 |
| MeSH | Procedure | Measurement | 2 |
| MeSH | Procedure | Observation | 36 |
| MeSH | Procedure | Spec Anatomic Site | 1 |
Newly added concepts grouped by Vocabulary_id and Domain
| vocabulary_id | domain_id | count |
|---|
| CO-CONNECT | Condition | 16 |
| CO-CONNECT | Device | 277 |
| CO-CONNECT | Drug | 8 |
| CO-CONNECT | Measurement | 113 |
| CO-CONNECT | Observation | 123 |
| CO-CONNECT MIABIS | Specimen | 60 |
| CO-CONNECT TWINS | Measurement | 449 |
| CO-CONNECT TWINS | Observation | 3426 |
| CPT4 | Drug | 1 |
| CVX | Drug | 5 |
| dm+d | Device | 8284 |
| dm+d | Drug | 9698 |
| HCPCS | Condition | 4 |
| HCPCS | Device | 41 |
| HCPCS | Drug | 106 |
| HCPCS | Observation | 69 |
| HCPCS | Procedure | 68 |
| MeSH | Condition | 5121 |
| MeSH | Device | 2064 |
| MeSH | Drug | 3107 |
| MeSH | Geography | 424 |
| MeSH | Measurement | 260 |
| MeSH | Observation | 323582 |
| MeSH | Procedure | 2132 |
| MeSH | Spec Anatomic Site | 1927 |
| NDC | Device | 24 |
| NDC | Drug | 18306 |
| OMOP Extension | Measurement | 32 |
| RxNorm | Drug | 1098 |
| RxNorm Extension | Drug | 32681 |
| SPL | Drug | 20164 |
| SPL | Observation | 1 |
Standard concept changes
| vocabulary_id | old_standard_concept | new_standard_concept | count |
|---|
| CVX | Standard | Non-standard with mapping | 13 |
| CVX | Standard | Non-standard without mapping | 1 |
| dm+d | Standard | Non-standard with mapping | 1479 |
| dm+d | Non-standard with mapping | Standard | 48 |
| dm+d | Non-standard without mapping | Standard | 28 |
| HCPCS | Standard | Non-standard with mapping | 878 |
| HCPCS | Non-standard with mapping | Standard | 23 |
| HCPCS | Standard | Non-standard without mapping | 3 |
| HCPCS | Non-standard without mapping | Standard | 1 |
| NAACCR | Standard | Non-standard with mapping | 1517 |
| PPI | Non-standard with mapping | Standard | 3 |
| RxNorm | Standard | Non-standard without mapping | 65 |
| RxNorm | Standard | Non-standard with mapping | 16 |
| RxNorm | Classification without mapping | Non-standard without mapping | 8 |
| RxNorm Extension | Standard | Non-standard with mapping | 29 |
| SNOMED | Standard | Non-standard with mapping | 191 |
| SNOMED | Standard | Non-standard without mapping | 5 |
| SNOMED | Non-standard with mapping | Standard | 1 |
| SPL | Classification without mapping | Non-standard without mapping | 15 |
| SPL | Classification with mapping | Non-standard with mapping | 4 |
| SPL | Classification without mapping | Non-standard with mapping | 1 |
Newly added concepts and their standard concept status
| vocabulary_id | new_standard_concept | count |
|---|
| CDM | Standard | 15 |
| CO-CONNECT | Non-standard with mapping | 125 |
| CO-CONNECT | Non-standard without mapping | 412 |
| CO-CONNECT MIABIS | Non-standard without mapping | 5 |
| CO-CONNECT MIABIS | Non-standard with mapping | 55 |
| CO-CONNECT TWINS | Non-standard without mapping | 1763 |
| CO-CONNECT TWINS | Non-standard with mapping | 2112 |
| Concept Class | Non-standard without mapping | 1 |
| CPT4 | Non-standard with mapping | 1 |
| CVX | Standard | 5 |
| dm+d | Non-standard without mapping | 602 |
| dm+d | Standard | 6939 |
| dm+d | Non-standard with mapping | 10441 |
| HCPCS | Standard | 137 |
| HCPCS | Non-standard with mapping | 151 |
| MeSH | Non-standard with mapping | 75 |
| MeSH | Non-standard without mapping | 338542 |
| NDC | Standard | 24 |
| NDC | Non-standard without mapping | 7702 |
| NDC | Non-standard with mapping | 10604 |
| OMOP Extension | Standard | 32 |
| RxNorm | Non-standard with mapping | 35 |
| RxNorm | Non-standard without mapping | 52 |
| RxNorm | Classification without mapping | 130 |
| RxNorm | Standard | 881 |
| RxNorm Extension | Non-standard without mapping | 262 |
| RxNorm Extension | Standard | 32419 |
| SPL | Non-standard without mapping | 1 |
| SPL | Classification without mapping | 20164 |
| Vocabulary | Non-standard without mapping | 3 |
Changes of concept mapping status grouped by target domain
| vocabulary_id | Old target Domain/Status | New target Domain/Status | count |
|---|
| AMT | Drug | No mapping | 2 |
| ATC | Drug | No mapping | 2 |
| BDPM | Drug | No mapping | 2 |
| CDM | New concept | Metadata | 15 |
| CIEL | Drug | No mapping | 4 |
| CIEL | Observation | No mapping | 17 |
| CIM10 | Condition/Observation | Condition | 2 |
| CIM10 | Observation | No mapping | 2 |
| CO-CONNECT | New concept | Condition | 34 |
| CO-CONNECT | New concept | Condition/Observation | 1 |
| CO-CONNECT | New concept | Drug | 8 |
| CO-CONNECT | New concept | Measurement | 18 |
| CO-CONNECT | New concept | Observation | 43 |
| CO-CONNECT | New concept | Race | 21 |
| CO-CONNECT MIABIS | New concept | Spec Anatomic Site | 3 |
| CO-CONNECT MIABIS | New concept | Specimen | 52 |
| CO-CONNECT TWINS | New concept | Condition | 3 |
| CO-CONNECT TWINS | New concept | Measurement | 60 |
| CO-CONNECT TWINS | New concept | Observation | 2035 |
| CO-CONNECT TWINS | New concept | Observation/Procedure | 1 |
| CO-CONNECT TWINS | New concept | Procedure | 1 |
| CO-CONNECT TWINS | New concept | Race | 12 |
| CPT4 | Device | Procedure | 1 |
| CPT4 | Drug | Drug/Procedure | 1 |
| CPT4 | Measurement | Procedure | 1 |
| CPT4 | New concept | Drug/Procedure | 1 |
| CTD | Drug | No mapping | 4 |
| CVX | Drug | Drug/Procedure | 2 |
| CVX | Drug | No mapping | 1 |
| CVX | Drug | Observation | 1 |
| CVX | New concept | Drug | 5 |
| DA_France | Drug | No mapping | 5 |
| dm+d | Device | Drug | 18 |
| dm+d | Drug | Device | 48 |
| dm+d | Drug | No mapping | 462 |
| dm+d | New concept | Device | 8284 |
| dm+d | New concept | Drug | 9096 |
| dm+d | No mapping | Device | 58 |
| dm+d | No mapping | Drug | 385 |
| GCN_SEQNO | Drug | No mapping | 3 |
| Gemscript | Device | Drug | 11 |
| Gemscript | Device | No mapping | 5 |
| Gemscript | Drug | No mapping | 5 |
| GPI | Drug | No mapping | 6 |
| GRR | Drug | No mapping | 1 |
| HCPCS | Device | Drug | 5 |
| HCPCS | Device | Observation/Visit | 1 |
| HCPCS | Device | Procedure | 8 |
| HCPCS | Device | Procedure/Visit | 2 |
| HCPCS | Device/Drug | Drug | 1 |
| HCPCS | Drug | Condition/Drug/Visit | 3 |
| HCPCS | Drug | Device | 14 |
| HCPCS | Drug | Drug/Procedure | 1 |
| HCPCS | Drug | Drug/Visit | 5 |
| HCPCS | Drug | Observation | 1 |
| HCPCS | Drug | Procedure | 3 |
| HCPCS | Measurement | Procedure | 1 |
| HCPCS | New concept | Condition | 4 |
| HCPCS | New concept | Device | 41 |
| HCPCS | New concept | Drug | 106 |
| HCPCS | New concept | Observation | 69 |
| HCPCS | New concept | Procedure | 67 |
| HCPCS | New concept | Procedure/Visit | 1 |
| HCPCS | No mapping | Condition | 3 |
| HCPCS | No mapping | Drug | 1 |
| HCPCS | No mapping | Measurement | 3 |
| HCPCS | No mapping | Observation | 1 |
| HCPCS | No mapping | Procedure | 11 |
| HCPCS | No mapping | Procedure/Visit | 3 |
| HCPCS | No mapping | Visit | 1 |
| HCPCS | Observation | Condition | 75 |
| HCPCS | Observation | Condition/Measurement | 8 |
| HCPCS | Observation | Condition/Procedure | 1 |
| HCPCS | Observation | Condition/Visit | 5 |
| HCPCS | Observation | Device | 1 |
| HCPCS | Observation | Drug | 2 |
| HCPCS | Observation | Drug/Procedure/Provider | 1 |
| HCPCS | Observation | No mapping | 4 |
| HCPCS | Observation | Observation/Procedure | 1 |
| HCPCS | Observation | Observation/Provider | 2 |
| HCPCS | Observation | Observation/Provider/Visit | 1 |
| HCPCS | Observation | Observation/Visit | 19 |
| HCPCS | Observation | Procedure | 27 |
| HCPCS | Observation | Procedure/Provider | 4 |
| HCPCS | Observation | Procedure/Provider/Visit | 10 |
| HCPCS | Observation | Procedure/Visit | 25 |
| HCPCS | Observation | Provider | 25 |
| HCPCS | Observation | Provider/Visit | 14 |
| HCPCS | Observation | Visit | 172 |
| HCPCS | Procedure | Condition | 7 |
| HCPCS | Procedure | Condition/Procedure | 1 |
| HCPCS | Procedure | Device | 4 |
| HCPCS | Procedure | Drug | 1 |
| HCPCS | Procedure | Drug/Visit | 2 |
| HCPCS | Procedure | Measurement | 11 |
| HCPCS | Procedure | Measurement/Procedure | 2 |
| HCPCS | Procedure | No mapping | 40 |
| HCPCS | Procedure | Observation | 136 |
| HCPCS | Procedure | Observation/Procedure | 2 |
| HCPCS | Procedure | Observation/Visit | 7 |
| HCPCS | Procedure | Procedure/Provider | 2 |
| HCPCS | Procedure | Procedure/Visit | 102 |
| HCPCS | Procedure | Provider | 3 |
| HCPCS | Procedure | Provider/Visit | 3 |
| HCPCS | Procedure | Visit | 24 |
| HCPCS | Provider | Observation | 3 |
| HCPCS | Provider | Provider/Visit | 2 |
| HCPCS | Visit | Observation | 1 |
| HemOnc | Drug | No mapping | 5 |
| ICD10 | Condition/Observation | Condition | 2 |
| ICD10 | Observation | No mapping | 2 |
| ICD10CM | Condition/Observation | Condition | 18 |
| ICD10CM | Observation | No mapping | 5 |
| ICD10CN | Condition/Observation | Condition | 4 |
| ICD10CN | Observation | No mapping | 4 |
| ICD10GM | Condition/Observation | Condition | 2 |
| ICD10GM | Observation | No mapping | 1 |
| ICD9CM | Condition/Observation | Condition | 6 |
| ICD9CM | Observation | No mapping | 1 |
| JMDC | Drug | No mapping | 1 |
| KCD7 | Condition/Observation | Condition | 2 |
| KCD7 | Observation | No mapping | 2 |
| KDC | Drug | No mapping | 2 |
| LPD_Belgium | Drug | No mapping | 6 |
| MedDRA | Drug | No mapping | 2 |
| MedDRA | Observation | No mapping | 14 |
| MeSH | Drug | No mapping | 2 |
| MeSH | Measurement | Condition | 1 |
| MeSH | Measurement | Procedure | 2 |
| MeSH | New concept | Condition | 26 |
| MeSH | New concept | Drug | 49 |
| MeSH | No mapping | Condition | 2 |
| MeSH | No mapping | Drug | 1 |
| MeSH | No mapping | Procedure | 1 |
| MeSH | Observation | No mapping | 1 |
| MeSH | Procedure | Measurement | 1 |
| NAACCR | Meas Value | Measurement | 1517 |
| NDC | Drug | No mapping | 437 |
| NDC | New concept | Device | 24 |
| NDC | New concept | Drug | 10604 |
| NDC | No mapping | Drug | 2277 |
| NDFRT | Drug | No mapping | 1 |
| Nebraska Lexicon | Condition | No mapping | 10 |
| Nebraska Lexicon | Measurement | No mapping | 4 |
| Nebraska Lexicon | Observation | No mapping | 237 |
| Nebraska Lexicon | Procedure | No mapping | 1 |
| OMOP Extension | New concept | Measurement | 32 |
| OMOP Invest Drug | Drug | No mapping | 30 |
| OXMIS | Observation | No mapping | 14 |
| Read | Condition | No mapping | 2 |
| Read | Drug | No mapping | 15 |
| Read | Measurement | No mapping | 2 |
| Read | Observation | No mapping | 75 |
| RxNorm | Drug | No mapping | 71 |
| RxNorm | New concept | Drug | 916 |
| RxNorm Extension | Drug | No mapping | 1 |
| RxNorm Extension | New concept | Drug | 32419 |
| SNOMED | Condition | Condition/Observation | 9 |
| SNOMED | Condition | Observation | 12 |
| SNOMED | Drug | No mapping | 1 |
| SNOMED | Drug/Observation | Observation | 1 |
| SNOMED | Drug/Procedure | Drug | 1 |
| SNOMED | Measurement | Observation | 4 |
| SNOMED | No mapping | Condition/Observation | 11 |
| SNOMED | No mapping | Drug | 14 |
| SNOMED | No mapping | Observation | 3 |
| SNOMED | Observation | Condition/Observation | 6 |
| SNOMED | Observation | Measurement | 8 |
| SNOMED | Observation | No mapping | 14 |
| SNOMED | Procedure | Observation | 3 |
| SNOMED | Unit | Observation | 1 |
| SPL | Drug | No mapping | 4 |
| SPL | No mapping | Drug | 1 |
| SUS | Observation | No mapping | 1 |
| UK Biobank | Condition | No mapping | 1 |
| UK Biobank | Observation | No mapping | 2 |
| VANDF | Drug | No mapping | 4 |
New vocabularies added
| vocabulary_id |
|---|
| CO-CONNECT |
| CO-CONNECT MIABIS |
| CO-CONNECT TWINS |
New vocabulary dependencies
| source vocabulary_id | target vocabulary_id | count |
|---|
| CO-CONNECT | CVX | 4 |
| CO-CONNECT | LOINC | 18 |
| CO-CONNECT | OMOP Extension | 50 |
| CO-CONNECT | Race | 21 |
| CO-CONNECT | RxNorm | 4 |
| CO-CONNECT | SNOMED | 29 |
| CO-CONNECT MIABIS | SNOMED | 55 |
| CO-CONNECT TWINS | LOINC | 43 |
| CO-CONNECT TWINS | OMOP Extension | 1622 |
| CO-CONNECT TWINS | Race | 12 |
| CO-CONNECT TWINS | SNOMED | 452 |
| HCPCS | Cancer Modifier | 8 |
| HCPCS | LOINC | 2 |
| HCPCS | OMOP Genomic | 28 |
| HCPCS | UB04 Typ bill | 3 |
If you have any questions, please try to find the answers on http://forums.ohdsi.org. If you can't find it, please ask here: http://forums.ohdsi.org/t/vocabulary-release-questions/6650
