| ... | ... | @@ -146,6 +146,30 @@ |
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| id | | fhir_logical_id | | prefix "con-"|
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| identifier.value| | fhir_identifier | | prefix "con-"|
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### Information for stage
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| FHIR | FHIR - required | OMOP | OMOP - required | Comments |
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|:------: |:------: |:------: |:------: |:------: |
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| | | observation_id | :heavy_check_mark: |This id is generated for each condition resource automatically. |
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| subject.reference or <br> subject.identifier.value | | person_id | :heavy_check_mark: | The patient reference is used to search for the person_id in PERSON. |
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| | |observation_concept_id| :heavy_check_mark: | SNOMED-code from observation_source_value <br> CONCEPT.concept_id WHERE CONCEPT.concept_code = observation_source_value AND CONCEPT.vocabulary_id = 'SNOMED' |
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|recordedDate or <br> onsetPeriod.start or <br> onsetDateTime.value | :heavy_check_mark: <br> <br> |observation_date|:heavy_check_mark: | |
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|recordedDate or <br> onsetPeriod.start or <br> onsetDateTime.value | :heavy_check_mark: <br> <br> |observation_datetime| | |
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| | |observation_type_concept_id| :heavy_check_mark: |default value: 32817 (EHR) |
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| | | :x: value_as_number | | |
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| stage.summary.coding.code | | value_as_string | | |
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| | | :x: value_as_concept_id | | |
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| | | :x: qualifier_concept_id | | |
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| | | :x: unit_concept_id | | |
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| | | :x: provider_id | | |
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| encounter.reference or <br> encounter.identifier.value | | visit_occurrence_id | | The encounter reference is used to search for the visit_occurrence_id in VISIT_OCCURRENCE. |
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| | | :x: visit_detail_id| | |
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| stage.summary.coding.code | |observation_source_value| | |
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| | | observation_source_concept_id| | SNOMED-code from observation_source_value <br> CONCEPT.concept_id WHERE CONCEPT.concept_code = observation_source_value AND CONCEPT.vocabulary_id = 'SNOMED'|
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| | | :x: unit_source_value | | |
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| | | :x: qualifier_source_value | | |
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| id | | fhir_logical_id | | prefix "con-"|
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| identifier.value| | fhir_identifier | | prefix "con-"|
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## Condition to POST_PROCESS_MAP
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### Information for primary and secondary ICD
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| ... | ... | @@ -184,6 +208,18 @@ |
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| id | | fhir_logical_id | | prefix "con-"|
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| identifier.value| | fhir_identifier | | prefix "con-"|
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### Information for stage
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| FHIR | FHIR - required | OMOP | OMOP - required | Comments |
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| ------ | ------ | ------ | ------ | ------ |
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| | | data_id | | This id is generated for each condition resource automatically. |
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| | | type | | default value: "CONDITION" |
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| stage.summary.coding.code | | data_one | | stage + ":Observation" |
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| code.coding.code | :heavy_check_mark: | data_two | | It represents the linkage between the diagnosis code and its respective domain. |
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| | | omop_id | | This id represents the person_id of the PERSON table. |
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| | | omop_table | | default value: "stage" |
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| id | | fhir_logical_id | | prefix "con-"|
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| identifier.value| | fhir_identifier | | prefix "con-"|
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## Example
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### Input Condition Resource
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| ... | ... | @@ -237,6 +273,29 @@ |
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]
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}
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],
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"stage": [
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{
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"summary": {
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"coding": [
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{
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"system": "http://snomed.info/sct",
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"code": "24484000",
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"display": "Severe (severity modifier) (qualifier value)"
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}
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],
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"text": "Critical phase"
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},
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"type": {
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"coding": [
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{
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"system": "http://loinc.org",
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"code": "88859-4",
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"display": "Disease stage score for risk calculation"
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}
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]
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}
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}
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],
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"meta":{
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"source":"#p21"
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},
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| ... | ... | @@ -277,6 +336,11 @@ Information for severity |
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|----|----|----|----|----|----|----|----|----|----|----|
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|2|1|4087703|2018-02-15|2018-02-15 17:25:00|32817|24484000|1|24484000|4197258|con-id-1|con-id-1|
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Information for severity
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|observation_id|person_id|observation_concept_id|observation_date|observation_datetime|observation_type_concept_id|value_as_string|visit_occurrence_id|observation_source_value|observation_source_concept_id|fhir_logical_id|fhir_identifier|
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|----|----|----|----|----|----|----|----|----|----|----|
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|3|1|4087703|2018-02-15|2018-02-15 17:25:00|32817|24484000|1|24484000|4197258|con-id-1|con-id-1|
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+ POST_PROCESS_MAP
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Information for primary and secondary ICD
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| ... | ... | @@ -295,3 +359,9 @@ Information for severity |
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|:----:|:----:|:----:|:----:|:----:|:----:|:----:|:----:|
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| 4 | CONDITION | 24484000:Observation | Z71:Condition | 1 | severity |con-id-1|con-id-1|
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| 5 | CONDITION | 24484000:Observation | Z50.1:Condition | 1 | severity |con-id-1|con-id-1|
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Information for severity
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|data_id|type|data_one|data_two|omop_id|omop_table|fhir_logical_id|fhir_identifier|
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|:----:|:----:|:----:|:----:|:----:|:----:|:----:|:----:|
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| 6 | CONDITION | 24484000:Observation | Z71:Condition | 1 | stage |con-id-1|con-id-1|
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| 7 | CONDITION | 24484000:Observation | Z50.1:Condition | 1 | stage |con-id-1|con-id-1| |
