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Fixed formatting

clairblacketer 2017-06-20 14:48:43 -04:00
parent fcd3c5bbc5
commit dbb4350e97
10 changed files with 11 additions and 11 deletions
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4
StandardizedClinicalDataTables/DRUG_EXPOSURE.md

@ -2,13 +2,13 @@ The drug exposure domain captures records about the utilization of a Drug when i
Drug Exposure is inferred from clinical events associated with orders, prescriptions written, pharmacy dispensings, procedural administrations, and other patient-reported information, for example: Drug Exposure is inferred from clinical events associated with orders, prescriptions written, pharmacy dispensings, procedural administrations, and other patient-reported information, for example:
* The “Prescription” section of an EHR captures prescriptions written by physicians or from electronic ordering systems * The "Prescription" section of an EHR captures prescriptions written by physicians or from electronic ordering systems
* The "Medication list" section of an EHR for both non-prescription products and medications prescribed by other providers * The "Medication list" section of an EHR for both non-prescription products and medications prescribed by other providers
* Prescriptions filled at dispensing providers such as pharmacies, and then captured in reimbursement claim systems * Prescriptions filled at dispensing providers such as pharmacies, and then captured in reimbursement claim systems
* Drugs administered as part of a Procedure, such as chemotherapy or vaccines. * Drugs administered as part of a Procedure, such as chemotherapy or vaccines.
Field|Required|Type|Description Field|Required|Type|Description
:---------------------------|:--------|:-----|:------------------------------------------------ :---------------------------|:--------|:------------|:------------------------------------------------
|drug_exposure_id|Yes|integer|A system-generated unique identifier for each Drug utilization event.| |drug_exposure_id|Yes|integer|A system-generated unique identifier for each Drug utilization event.|
|person_id|Yes|integer|A foreign key identifier to the person who is subjected to the Drug. The demographic details of that person are stored in the person table.| |person_id|Yes|integer|A foreign key identifier to the person who is subjected to the Drug. The demographic details of that person are stored in the person table.|
|drug_concept_id|Yes|integer|A foreign key that refers to a Standard Concept identifier in the Standardized Vocabularies for the Drug concept.| |drug_concept_id|Yes|integer|A foreign key that refers to a Standard Concept identifier in the Standardized Vocabularies for the Drug concept.|

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StandardizedClinicalDataTables/FACT_RELATIONSHIP.md

@ -1,7 +1,7 @@
The FACT_RELATIONSHIP table contains records about the relationships between facts stored as records in any table of the CDM. Relationships can be defined between facts from the same domain (table), or different domains. Examples of Fact Relationships include: Person relationships (parent-child), care site relationships (hierarchical organizational structure of facilities within a health system), indication relationship (between drug exposures and associated conditions), usage relationships (of devices during the course of an associated procedure), or facts derived from one another (measurements derived from an associated specimen). The FACT_RELATIONSHIP table contains records about the relationships between facts stored as records in any table of the CDM. Relationships can be defined between facts from the same domain (table), or different domains. Examples of Fact Relationships include: Person relationships (parent-child), care site relationships (hierarchical organizational structure of facilities within a health system), indication relationship (between drug exposures and associated conditions), usage relationships (of devices during the course of an associated procedure), or facts derived from one another (measurements derived from an associated specimen).
Field|Required|Type|Description Field|Required|Type|Description
:-------------------------|:--------|:-----|:-------------------------------------------------------------- :-------------------------|:--------|:------------|:--------------------------------------------------------------
|domain_concept _id_1|Yes|integer|The concept representing the domain of fact one, from which the corresponding table can be inferred.| |domain_concept _id_1|Yes|integer|The concept representing the domain of fact one, from which the corresponding table can be inferred.|
|fact_id_1|Yes|integer|The unique identifier in the table corresponding to the domain of fact one.| |fact_id_1|Yes|integer|The unique identifier in the table corresponding to the domain of fact one.|
|domain_concept_id_2|Yes|integer|The concept representing the domain of fact two, from which the corresponding table can be inferred.| |domain_concept_id_2|Yes|integer|The concept representing the domain of fact two, from which the corresponding table can be inferred.|

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StandardizedClinicalDataTables/MEASUREMENT.md

@ -1,7 +1,7 @@
The MEASUREMENT table contains records of Measurement, i.e. structured values (numerical or categorical) obtained through systematic and standardized examination or testing of a Person or Person's sample. The MEASUREMENT table contains both orders and results of such Measurements as laboratory tests, vital signs, quantitative findings from pathology reports, etc. The MEASUREMENT table contains records of Measurement, i.e. structured values (numerical or categorical) obtained through systematic and standardized examination or testing of a Person or Person's sample. The MEASUREMENT table contains both orders and results of such Measurements as laboratory tests, vital signs, quantitative findings from pathology reports, etc.
Field|Required|Type|Description Field|Required|Type|Description
:-------------------------|:--------|:-----|:------------------------------------------------ :-------------------------|:--------|:------------|:------------------------------------------------
|measurement_id|Yes|integer|A unique identifier for each Measurement.| |measurement_id|Yes|integer|A unique identifier for each Measurement.|
|person_id|Yes|integer|A foreign key identifier to the Person about whom the measurement was recorded. The demographic details of that Person are stored in the PERSON table.| |person_id|Yes|integer|A foreign key identifier to the Person about whom the measurement was recorded. The demographic details of that Person are stored in the PERSON table.|
|measurement_concept_id|Yes|integer|A foreign key to the standard measurement concept identifier in the Standardized Vocabularies.| |measurement_concept_id|Yes|integer|A foreign key to the standard measurement concept identifier in the Standardized Vocabularies.|

2
StandardizedClinicalDataTables/NOTE.md

@ -1,7 +1,7 @@
The NOTE table captures unstructured information that was recorded by a provider about a patient in free text notes on a given date. The NOTE table captures unstructured information that was recorded by a provider about a patient in free text notes on a given date.
Field|Required|Type|Description Field|Required|Type|Description
:--------------------|:--------|:-----|:-------------------------------------------------------- :--------------------|:--------|:------------|:--------------------------------------------------------
|note_id|Yes|integer|A unique identifier for each note.| |note_id|Yes|integer|A unique identifier for each note.|
|person_id|Yes|integer|A foreign key identifier to the Person about whom the Note was recorded. The demographic details of that Person are stored in the PERSON table.| |person_id|Yes|integer|A foreign key identifier to the Person about whom the Note was recorded. The demographic details of that Person are stored in the PERSON table.|
|note_date |Yes|date|The date the note was recorded.| |note_date |Yes|date|The date the note was recorded.|

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StandardizedClinicalDataTables/OBSERVATION.md

@ -1,7 +1,7 @@
The OBSERVATION table captures clinical facts about a Person obtained in the context of examination, questioning or a procedure. Any data that cannot be represented by any other domains, such as social and lifestyle facts, medical history, family history, etc. are recorded here. The OBSERVATION table captures clinical facts about a Person obtained in the context of examination, questioning or a procedure. Any data that cannot be represented by any other domains, such as social and lifestyle facts, medical history, family history, etc. are recorded here.
Field|Required|Type|Description Field|Required|Type|Description
:--------------------|:--------|:-----|:------------------------------------------------------- :--------------------|:--------|:------------|:-------------------------------------------------------
|observation_id|Yes|integer|A unique identifier for each observation.| |observation_id|Yes|integer|A unique identifier for each observation.|
|person_id|Yes|integer|A foreign key identifier to the Person about whom the observation was recorded. The demographic details of that Person are stored in the PERSON table.| |person_id|Yes|integer|A foreign key identifier to the Person about whom the observation was recorded. The demographic details of that Person are stored in the PERSON table.|
|observation_concept_id|Yes|integer|A foreign key to the standard observation concept identifier in the Standardized Vocabularies.| |observation_concept_id|Yes|integer|A foreign key to the standard observation concept identifier in the Standardized Vocabularies.|

2
StandardizedClinicalDataTables/OBSERVATION_PERIOD.md

@ -1,7 +1,7 @@
The OBSERVATION_PERIOD table contains records which uniquely define the spans of time for which a Person is at-risk to have clinical events recorded within the source systems, even if no events in fact are recorded (healthy patient with no healthcare interactions). The OBSERVATION_PERIOD table contains records which uniquely define the spans of time for which a Person is at-risk to have clinical events recorded within the source systems, even if no events in fact are recorded (healthy patient with no healthcare interactions).
Field|Required|Type|Description Field|Required|Type|Description
:------------------------------|:--------|:-----|:---------------------------------------------- :------------------------------|:--------|:------------|:----------------------------------------------
|observation_period_id|Yes|integer|A unique identifier for each observation period.| |observation_period_id|Yes|integer|A unique identifier for each observation period.|
|person_id|Yes|integer|A foreign key identifier to the person for whom the observation period is defined. The demographic details of that person are stored in the person table.| |person_id|Yes|integer|A foreign key identifier to the person for whom the observation period is defined. The demographic details of that person are stored in the person table.|
|observation_period_start_date|Yes|date|The start date of the observation period for which data are available from the data source.| |observation_period_start_date|Yes|date|The start date of the observation period for which data are available from the data source.|

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StandardizedClinicalDataTables/PERSON.md

@ -1,7 +1,7 @@
The Person Domain contains records that uniquely identify each patient in the source data who is time at-risk to have clinical observations recorded within the source systems. The Person Domain contains records that uniquely identify each patient in the source data who is time at-risk to have clinical observations recorded within the source systems.
Field|Required|Type|Description Field|Required|Type|Description
:------------------------|:--------|:-----|:----------------------------------------------- :------------------------|:--------|:------------|:-----------------------------------------------
|person_id|Yes|integer|A unique identifier for each person.| |person_id|Yes|integer|A unique identifier for each person.|
|gender_concept_id|Yes|integer|A foreign key that refers to an identifier in the CONCEPT table for the unique gender of the person.| |gender_concept_id|Yes|integer|A foreign key that refers to an identifier in the CONCEPT table for the unique gender of the person.|
|year_of_birth |Yes|integer|The year of birth of the person. For data sources with date of birth, the year is extracted. For data sources where the year of birth is not available, the approximate year of birth is derived based on any age group categorization available.| |year_of_birth |Yes|integer|The year of birth of the person. For data sources with date of birth, the year is extracted. For data sources where the year of birth is not available, the approximate year of birth is derived based on any age group categorization available.|

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StandardizedClinicalDataTables/PROCEDURE_OCCURRENCE.md

@ -3,7 +3,7 @@ The PROCEDURE_OCCURRENCE table contains records of activities or processes order
* Electronic Health Records that capture procedures as orders. * Electronic Health Records that capture procedures as orders.
Field|Required|Type|Description Field|Required|Type|Description
:------------------------|:--------|:-----|:---------------------------------------- :------------------------|:--------|:------------|:----------------------------------------
|procedure_occurrence_id|Yes|integer|A system-generated unique identifier for each Procedure Occurrence.| |procedure_occurrence_id|Yes|integer|A system-generated unique identifier for each Procedure Occurrence.|
|person_id|Yes|integer|A foreign key identifier to the Person who is subjected to the Procedure. The demographic details of that Person are stored in the PERSON table.| |person_id|Yes|integer|A foreign key identifier to the Person who is subjected to the Procedure. The demographic details of that Person are stored in the PERSON table.|
|procedure_concept_id|Yes|integer|A foreign key that refers to a standard procedure Concept identifier in the Standardized Vocabularies.| |procedure_concept_id|Yes|integer|A foreign key that refers to a standard procedure Concept identifier in the Standardized Vocabularies.|

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StandardizedClinicalDataTables/SPECIMEN.md

@ -1,7 +1,7 @@
The specimen domain contains the records identifying biological samples from a person. The specimen domain contains the records identifying biological samples from a person.
Field|Required|Type|Description Field|Required|Type|Description
:-------------------------|:--------|:-----|:------------------------------------------------------ :-------------------------|:--------|:------------|:------------------------------------------------------
|specimen_id|Yes|integer|A unique identifier for each specimen.| |specimen_id|Yes|integer|A unique identifier for each specimen.|
|person_id|Yes|integer|A foreign key identifier to the Person for whom the Specimen is recorded.| |person_id|Yes|integer|A foreign key identifier to the Person for whom the Specimen is recorded.|
|specimen_concept_id|Yes|integer|A foreign key referring to a Standard Concept identifier in the Standardized Vocabularies for the Specimen.| |specimen_concept_id|Yes|integer|A foreign key referring to a Standard Concept identifier in the Standardized Vocabularies for the Specimen.|

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StandardizedClinicalDataTables/Standardized-Clinical-Data-Tables.md

@ -15,4 +15,4 @@
These tables contain the core information about the clinical events that occurred longitudinally during valid Observation Periods for each Person, as well as demographic information for the Person. These tables contain the core information about the clinical events that occurred longitudinally during valid Observation Periods for each Person, as well as demographic information for the Person.
Below provides an entity-relationship diagram highlighting the tables within the Standardized Clinical Data portion of the OMOP Common Data Model: Below provides an entity-relationship diagram highlighting the tables within the Standardized Clinical Data portion of the OMOP Common Data Model:
![](http://www.ohdsi.org/web/wiki/lib/exe/fetch.php?media=documentation:cdm:standard_clinical_data_tables.png) ![Clinical data entity-relationship diagram](http://www.ohdsi.org/web/wiki/lib/exe/fetch.php?media=documentation:cdm:standard_clinical_data_tables.png)