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omh2fhir |
{%hackmd 2yYAoTGSSpiWVb7EWu6v0w %}
The following Table provides the detailed mapping for the OMH Total Sleep Time DataPoint to the OMH to FHIR Observation Profile TODO: add link to map and profile:
| Index | OMH Total Sleep Time Element | FHIR Attribute | Mapping Instructions |
|---|---|---|---|
| 1 | total-sleep-time-1.0.json | OMH to FHIR Observation Profile | |
| 2.1 | total_sleep_time | Observation.valueQuantity | see valueQuantity elements below |
| 2.2 | total_sleep_time.value | Observation.valueQuantity.value | = total_sleep_time.value |
| 2.3 | total_sleep_time.unit | Observation.valueQuantity.unit | IF body.descriptive_statistic_denominator is present = concatenation of total_sleep_time.unit + mapping of body.descriptive_statistic_denominator to column 'Unit' using the OMH_FHIR_Descriptive_Statistic_Denominator_Mapping _Table (for example 'min/day') ELSE = total_sleep_time.unit (for example, 'min') |
| 2.4 | total_sleep_time.unit | Observation.valueQuantity.system | fixed to 'http://unitsofmeasure.org' |
| 2.5 | total_sleep_time.unit | Observation.valueQuantity.code | IF body.descriptive_statistic_denominator is present = concatenation of mapping of total_sleep_time.unit to column 'FHIR Unit' using the OMH_FHIR_Concept_Mapping_Table + mapping of body.descriptive_statistic_denominator to column 'Code' using the OMH_FHIR_Descriptive_Statistic_Denominator_Mapping _Table (for example 'min/d') ELSE = mapping of total_sleep_time.unit to column 'FHIR Unit' using the OMH_FHIR_Concept_Mapping_Table (for example, 'min') |
| 3 | body.effective_time_frame | Observation.effectivePeriod | see effectivePeriod elements below |
| 4 | body.effective_time_frame.time_interval | Observation.effectivePeriod | see effectivePeriod elements below |
| 4.1 | body.effective_time_frame.time_interval.start_date_time | Observation.effectivePeriod.start | = body.effective_time_frame.time_interval.start_date_time |
| 4.2 | body.effective_time_frame.time_interval.end_date_time | Observation.effectivePeriod.end | = body.effective_time_frame.time_interval.end_date_time |
| 5 | body.descriptive_statistic | Observation.code.coding[1] | Map descriptive statistic to the OMH to FHIR additional Observation codings ( code system http://www.fhir.org/guides/mfhir/omh_fhir_observation_codes). |
| 5.1 | body.descriptive_statistic | Observation.code.coding[1].code | concatenation of header.schema_id.name = 'total-sleep-time' + '-' + body.descriptive_statistic/body.descriptive_statistic_denominator for example= total-sleep-time-maximum/session |
| 5.2 | body.descriptive_statistic | Observation.code.coding[1].system | fixed to '"http://www.fhir.org/guides/mfhir/omh_fhir_observation_codes"' |
| 5.3 | body.descriptive_statistic | Observation.code.coding[1].display | concatenation of header.schema_id.name = 'total-sleep-time' + '-' + body.descriptive_statistic/body.descriptive_statistic_denominator for example= total-sleep-time-maximum/session |
| 5 | body.descriptive_statistic_denominator | Observation.code.coding[1] | see body.descriptive_statistic above |
| 5.A1 | body.descriptive_statistic_denominator | Observation.code.coding[1].code | see body.descriptive_statistic above |
| 5.A2 | body.descriptive_statistic_denominator | Observation.code.coding[1].system | see body.descriptive_statistic above |
| 5.A3 | body.descriptive_statistic_denominator | Observation.code.coding[1].display | see body.descriptive_statistic above |
| 5.B1 | body.descriptive_statistic_denominator | Observation.valueQuantity.unit | see body.step_count.unit above |
| 5.B2 | body.descriptive_statistic_denominator | Observation.valueQuantity.code | see body.step_count.unit above |
The following OMH total-sleep-time schema instance:
{
"header": {
"id": "f4e9d921-b485-40a3-ad72-8d5c7f4840ba",
"creation_date_time": "2020-05-30T02:42:31.136858Z",
"schema_id": {
"namespace": "omh",
"name": "total-sleep-time",
"version": "1.0"
},
"acquisition_provenance": {
"source_name": "Acme total-sleep-time device",
"source_creation_date_time": "2020-05-30T02:42:31.136858Z",
"source_data_point_id": "faf655d5-9779-413e-b57a-e3aa6272b29c",
"modality": "sensed"
},
"user_id": "80d614c3-1e0e-4fc4-b586-2907bcec0775"
},
"body": {
"total_sleep_time": {
"value": 465,
"unit": "min"
},
"effective_time_frame": {
"time_interval": {
"start_date_time": "2016-02-05T20:35:00-08:00",
"end_date_time": "2016-02-06T06:35:00-08:00"
}
}
}
}Maps to this FHIR Observation (note that this example does not include the optional Provenance resource)
{
"resourceType": "Observation",
"meta": {
"profile": [
"http://www.fhir.org/mfhir/StructureDefinition/omh_fhir_profile_quantitative_observation"
]
},
"identifier": [
{
"system": "https://omh.org/shimmer/ids",
"value": "f4e9d921-b485-40a3-ad72-8d5c7f4840ba"
}
],
"status": "unknown",
"category": [
{
"coding": [
{
"system": "http://terminology.hl7.org/CodeSystem/observation-category",
"code": "physical-activity",
"display": "Physical Activity"
}
]
}
],
"code": {
"coding": [
{
"system": "http://snomed.info/sct",
"code": "248263006",
"display": "Duration of sleep (observable entity)"
}
]
},
"subject": {
"identifier": {
"system": "https://omh.org/shimmer/patient_ids",
"value": "80d614c3-1e0e-4fc4-b586-2907bcec0775"
}
},
"effectivePeriod": {
"start": "2016-02-05T20:35:00-08:00",
"end": "2016-02-06T06:35:00-08:00"
},
"issued": "2020-05-30T02:42:31.136858Z",
"valueQuantity": {
"value": 465,
"unit": "min",
"system": "http://unitsofmeasure.org",
"code": "min"
},
"device": {
"extension": [
{
"url": "http://www.fhir.org/mfhir/StructureDefinition/omh_fhir_observation_device_modality",
"valueCode": "sensed"
}
],
"display": "Acme total-sleep-time device"
}
}The following OMH total-sleep-time schema instance:
{
"header": {
"id": "fb8b65cf-0f30-4461-974d-37a18ad865d9",
"creation_date_time": "2020-05-30T02:44:35.120200Z",
"schema_id": {
"namespace": "omh",
"name": "total-sleep-time",
"version": "1.0"
},
"acquisition_provenance": {
"source_name": "Acme total-sleep-time device",
"source_creation_date_time": "2020-05-30T02:44:35.120200Z",
"source_data_point_id": "da62fdcc-7727-425a-8e68-4ff73c97dba2",
"modality": "sensed"
},
"user_id": "0090e44f-e79d-48a2-b80c-6f533fe494ba"
},
"body": {
"total_sleep_time": {
"value": 7.25,
"unit": "h"
},
"effective_time_frame": {
"time_interval": {
"start_date_time": "2016-02-05T07:00:00-08:00",
"end_date_time": "2016-06-06T07:00:00-08:00"
}
},
"descriptive_statistic": "average",
"descriptive_statistic_denominator": "d"
}
}Maps to this FHIR Observation (note that this example does not include the optional Provenance resource)
{
"resourceType": "Observation",
"meta": {
"profile": [
"http://www.fhir.org/mfhir/StructureDefinition/omh_fhir_profile_quantitative_observation"
]
},
"identifier": [
{
"system": "https://omh.org/shimmer/ids",
"value": "fb8b65cf-0f30-4461-974d-37a18ad865d9"
}
],
"status": "unknown",
"category": [
{
"coding": [
{
"system": "http://terminology.hl7.org/CodeSystem/observation-category",
"code": "physical-activity",
"display": "Physical Activity"
}
]
}
],
"code": {
"coding": [
{
"system": "http://snomed.info/sct",
"code": "248263006",
"display": "Duration of sleep (observable entity)"
},
{
"system": "http://hl7.org/fhir/omh_fhir_observation_codes",
"code": "total-sleep-time-average",
"display": "Total Sleep Time-Average"
}
]
},
"subject": {
"identifier": {
"system": "https://omh.org/shimmer/patient_ids",
"value": "0090e44f-e79d-48a2-b80c-6f533fe494ba"
}
},
"effectivePeriod": {
"start": "2016-02-05T07:00:00-08:00",
"end": "2016-06-06T07:00:00-08:00"
},
"issued": "2020-05-30T02:44:35.120200Z",
"valueQuantity": {
"value": 7.25,
"unit": "h/day",
"system": "http://unitsofmeasure.org",
"code": "h/day/{day}"
},
"device": {
"extension": [
{
"url": "http://www.fhir.org/mfhir/StructureDefinition/omh_fhir_observation_device_modality",
"valueCode": "sensed"
}
],
"display": "Acme total-sleep-time device"
}
}