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documentation:cdm:specimen
SPECIMEN
This table changed in version 5.1 of the OMOP CDM. The field specimen_datetime was added.
The specimen domain contains the records identifying biological samples from a person.
| Field | Required | Type | Description |
|---|---|---|---|
| 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. |
| specimen_concept_id | Yes | integer | A foreign key referring to a Standard Concept identifier in the Standardized Vocabularies for the Specimen. |
| specimen_type_concept_id | Yes | integer | A foreign key referring to the Concept identifier in the Standardized Vocabularies reflecting the system of record from which the Specimen was represented in the source data. |
| specimen_date | Yes | date | The date the specimen was obtained from the Person. |
| specimen_datetime | No | datetime | The date and time on the date when the Specimen was obtained from the person. |
| quantity | No | float | The amount of specimen collection from the person during the sampling procedure. |
| unit_concept_id | No | integer | A foreign key to a Standard Concept identifier for the Unit associated with the numeric quantity of the Specimen collection. |
| anatomic_site_concept_id | No | integer | A foreign key to a Standard Concept identifier for the anatomic location of specimen collection. |
| disease_status_concept_id | No | integer | A foreign key to a Standard Concept identifier for the Disease Status of specimen collection. |
| specimen_source_id | No | varchar(50) | The Specimen identifier as it appears in the source data. |
| specimen_source_value | No | varchar(50) | The Specimen value as it appears in the source data. This value is mapped to a Standard Concept in the Standardized Vocabularies and the original code is, stored here for reference. |
| unit_source_value | No | varchar(50) | The information about the Unit as detailed in the source. |
| anatomic_site_source_value | No | varchar(50) | The information about the anatomic site as detailed in the source. |
| disease_status_source_value | No | varchar(50) | The information about the disease status as detailed in the source. |
Conventions
- Anatomic site is coded at the most specific level of granularity possible, such that higher level classifications can be derived using the Standardized Vocabularies.
documentation/cdm/specimen.txt · Last modified: 2017/02/07 18:36 by cgreich
