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<!DOCTYPE html>
<html>
<head>
<meta charset="utf-8" />
<meta name="generator" content="pandoc" />
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<title>OMOP CDM v5.3</title>
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<h1 class="title toc-ignore"><strong>OMOP CDM v5.3</strong></h1>
</div>
<p>Below is the specification document for the OMOP Common Data Model,
v5.3 (previously v5.3.1). Each table is represented with a high-level
description and ETL conventions that should be followed. This is
continued with a discussion of each field in each table, any conventions
related to the field, and constraints that should be followed (like
primary key, foreign key, etc). All tables should be instantiated in a
CDM instance but do not need to be populated. Similarly, fields that are
not required should exist in the CDM table but do not need to be
populated. Should you have questions please feel free to visit the <a
href="https://forums.ohdsi.org/">forums</a> or the <a
href="https://github.com/ohdsi/CommonDataModel/issues">github issue</a>
page.</p>
<p><em><strong>Special Note</strong> This documentation previously
referenced v5.3.1. During the OHDSI/CommonDataModel Hack-A-Thon that
occurred on August 18, 2021 the decision was made to align documentation
with the minor releases. Hot fixes and minor.minor release can be found
through the searching of tags.</em></p>
<div id="person" class="section level3 tabset tabset-pills">
<h3 class="tabset tabset-pills">person</h3>
<p><strong>Table Description</strong></p>
<p>This table serves as the central identity management for all Persons
in the database. It contains records that uniquely identify each person
or patient, and some demographic information.</p>
<p><strong>User Guide</strong></p>
<p>All records in this table are independent Persons.</p>
<p><strong>ETL Conventions</strong></p>
<p>All Persons in a database needs one record in this table, unless they
fail data quality requirements specified in the ETL. Persons with no
Events should have a record nonetheless. If more than one data source
contributes Events to the database, Persons must be reconciled, if
possible, across the sources to create one single record per Person. The
content of the BIRTH_DATETIME must be equivalent to the content of
BIRTH_DAY, BIRTH_MONTH and BIRTH_YEAR.<br><br>For detailed conventions
for how to populate this table, please refer to the <a
href="https://ohdsi.github.io/Themis/person.html">THEMIS
repository</a>.</p>
<table class="table table-condensed table-hover" style="font-size: 13px; margin-left: auto; margin-right: auto;">
<thead>
<tr>
<th style="text-align:left;">
CDM Field
</th>
<th style="text-align:left;">
User Guide
</th>
<th style="text-align:left;">
ETL Conventions
</th>
<th style="text-align:left;">
Datatype
</th>
<th style="text-align:left;">
Required
</th>
<th style="text-align:left;">
Primary Key
</th>
<th style="text-align:left;">
Foreign Key
</th>
<th style="text-align:left;">
FK Table
</th>
<th style="text-align:left;">
FK Domain
</th>
</tr>
</thead>
<tbody>
<tr>
<td style="text-align:left;font-weight: bold;">
person_id
</td>
<td style="text-align:left;">
It is assumed that every person with a different unique identifier is in
fact a different person and should be treated independently.
</td>
<td style="text-align:left;">
Any person linkage that needs to occur to uniquely identify Persons
ought to be done prior to writing this table. This identifier can be the
original id from the source data provided if it is an integer, otherwise
it can be an autogenerated number.
</td>
<td style="text-align:left;">
integer
</td>
<td style="text-align:left;">
Yes
</td>
<td style="text-align:left;">
Yes
</td>
<td style="text-align:left;">
No
</td>
<td style="text-align:left;">
</td>
<td style="text-align:left;">
</td>
</tr>
<tr>
<td style="text-align:left;font-weight: bold;">
gender_concept_id
</td>
<td style="text-align:left;">
This field is meant to capture the biological sex at birth of the
Person. This field should not be used to study gender identity issues.
</td>
<td style="text-align:left;">
Use the gender or sex value present in the data under the assumption
that it is the biological sex at birth. If the source data captures
gender identity it should be stored in the <a
href="https://ohdsi.github.io/CommonDataModel/cdm531.html#observation">OBSERVATION</a>
table. <a
href="http://athena.ohdsi.org/search-terms/terms?domain=Gender&standardConcept=Standard&page=1&pageSize=15&query=">Accepted
gender concepts</a>. Please refer to the <a
href="https://ohdsi.github.io/Themis/tag_gender_concept_id.html">THEMIS
repository</a> for detailed conventions on how to populate this field.
</td>
<td style="text-align:left;">
integer
</td>
<td style="text-align:left;">
Yes
</td>
<td style="text-align:left;">
No
</td>
<td style="text-align:left;">
Yes
</td>
<td style="text-align:left;">
CONCEPT
</td>
<td style="text-align:left;">
Gender
</td>
</tr>
<tr>
<td style="text-align:left;font-weight: bold;">
year_of_birth
</td>
<td style="text-align:left;">
Compute age using year_of_birth.
</td>
<td style="text-align:left;">
For data sources with date of birth, the year should be extracted. If no
year of birth is available all the person’s data should be dropped from
the CDM instance. For additional information on how to populate this
field, please refer to the <a
href="https://ohdsi.github.io/Themis/tag_year_of_birth.html">THEMIS
repository</a>.
</td>
<td style="text-align:left;">
integer
</td>
<td style="text-align:left;">
Yes
</td>
<td style="text-align:left;">
No
</td>
<td style="text-align:left;">
No
</td>
<td style="text-align:left;">
</td>
<td style="text-align:left;">
</td>
</tr>
<tr>
<td style="text-align:left;font-weight: bold;">
month_of_birth
</td>
<td style="text-align:left;">
</td>
<td style="text-align:left;">
For data sources that provide the precise date of birth, the month
should be extracted and stored in this field.
</td>
<td style="text-align:left;">
integer
</td>
<td style="text-align:left;">
No
</td>
<td style="text-align:left;">
No
</td>
<td style="text-align:left;">
No
</td>
<td style="text-align:left;">
</td>
<td style="text-align:left;">
</td>
</tr>
<tr>
<td style="text-align:left;font-weight: bold;">
day_of_birth
</td>
<td style="text-align:left;">
</td>
<td style="text-align:left;">
For data sources that provide the precise date of birth, the day should
be extracted and stored in this field.
</td>
<td style="text-align:left;">
integer
</td>
<td style="text-align:left;">
No
</td>
<td style="text-align:left;">
No
</td>
<td style="text-align:left;">
No
</td>
<td style="text-align:left;">
</td>
<td style="text-align:left;">
</td>
</tr>
<tr>
<td style="text-align:left;font-weight: bold;">
birth_datetime
</td>
<td style="text-align:left;">
</td>
<td style="text-align:left;">
This field is not required but highly encouraged. For data sources that
provide the precise datetime of birth, that value should be stored in
this field. For more information on how to populate this field, please
refer to the <a href="https://ohdsi.github.io/Themis/person.html">THEMIS
repository</a>.
</td>
<td style="text-align:left;">
datetime
</td>
<td style="text-align:left;">
No
</td>
<td style="text-align:left;">
No
</td>
<td style="text-align:left;">
No
</td>
<td style="text-align:left;">
</td>
<td style="text-align:left;">
</td>
</tr>
<tr>
<td style="text-align:left;font-weight: bold;">
race_concept_id
</td>
<td style="text-align:left;">
This field captures race or ethnic background of the person.
</td>
<td style="text-align:left;">
Only use this field if you have information about race or ethnic
background. The Vocabulary contains Concepts about the main races and
ethnic backgrounds in a hierarchical system. Due to the imprecise nature
of human races and ethnic backgrounds, this is not a perfect system.
Mixed races are not supported. If a clear race or ethnic background
cannot be established, use Concept_Id 0. <a
href="http://athena.ohdsi.org/search-terms/terms?domain=Race&standardConcept=Standard&page=1&pageSize=15&query=">Accepted
Race Concepts</a>.
</td>
<td style="text-align:left;">
integer
</td>
<td style="text-align:left;">
Yes
</td>
<td style="text-align:left;">
No
</td>
<td style="text-align:left;">
Yes
</td>
<td style="text-align:left;">
CONCEPT
</td>
<td style="text-align:left;">
Race
</td>
</tr>
<tr>
<td style="text-align:left;font-weight: bold;">
ethnicity_concept_id
</td>
<td style="text-align:left;">
This field captures Ethnicity as defined by the Office of Management and
Budget (OMB) of the US Government: it distinguishes only between
“Hispanic” and “Not Hispanic”. Races and ethnic backgrounds are not
stored here.
</td>
<td style="text-align:left;">
Only use this field if you have US-based data and a source of this
information. Do not attempt to infer Ethnicity from the race or ethnic
background of the Person. <a
href="http://athena.ohdsi.org/search-terms/terms?domain=Ethnicity&standardConcept=Standard&page=1&pageSize=15&query=">Accepted
ethnicity concepts</a>
</td>
<td style="text-align:left;">
integer
</td>
<td style="text-align:left;">
Yes
</td>
<td style="text-align:left;">
No
</td>
<td style="text-align:left;">
Yes
</td>
<td style="text-align:left;">
CONCEPT
</td>
<td style="text-align:left;">
Ethnicity
</td>
</tr>
<tr>
<td style="text-align:left;font-weight: bold;">
location_id
</td>
<td style="text-align:left;">
The location refers to the physical address of the person. This field
should capture the last known location of the person.
</td>
<td style="text-align:left;">
Put the location_id from the <a
href="https://ohdsi.github.io/CommonDataModel/cdm531.html#location">LOCATION</a>
table here that represents the most granular location information for
the person. For additional information on how to populate this field,
please refer to the <a
href="https://ohdsi.github.io/Themis/populate_person_location_id.html">THEMIS
repository</a>.
</td>
<td style="text-align:left;">
integer
</td>
<td style="text-align:left;">
No
</td>
<td style="text-align:left;">
No
</td>
<td style="text-align:left;">
Yes
</td>
<td style="text-align:left;">
LOCATION
</td>
<td style="text-align:left;">
</td>
</tr>
<tr>
<td style="text-align:left;font-weight: bold;">
provider_id
</td>
<td style="text-align:left;">
The Provider refers to the last known primary care provider (General
Practitioner).
</td>
<td style="text-align:left;">
Put the provider_id from the <a
href="https://ohdsi.github.io/CommonDataModel/cdm531.html#provider">PROVIDER</a>
table of the last known general practitioner of the person. If there are
multiple providers, it is up to the ETL to decide which to put here.
</td>
<td style="text-align:left;">
integer
</td>
<td style="text-align:left;">
No
</td>
<td style="text-align:left;">
No
</td>
<td style="text-align:left;">
Yes
</td>
<td style="text-align:left;">
PROVIDER
</td>
<td style="text-align:left;">
</td>
</tr>
<tr>
<td style="text-align:left;font-weight: bold;">
care_site_id
</td>
<td style="text-align:left;">
The Care Site refers to where the Provider typically provides the
primary care.
</td>
<td style="text-align:left;">
</td>
<td style="text-align:left;">
integer
</td>
<td style="text-align:left;">
No
</td>
<td style="text-align:left;">
No
</td>
<td style="text-align:left;">
Yes
</td>
<td style="text-align:left;">
CARE_SITE
</td>
<td style="text-align:left;">
</td>
</tr>
<tr>
<td style="text-align:left;font-weight: bold;">
person_source_value
</td>
<td style="text-align:left;">
Use this field to link back to persons in the source data. This is
typically used for error checking of ETL logic.
</td>
<td style="text-align:left;">
Some use cases require the ability to link back to persons in the source
data. This field allows for the storing of the person value as it
appears in the source. This field is not required but strongly
recommended.
</td>
<td style="text-align:left;">
varchar(50)
</td>
<td style="text-align:left;">
No
</td>
<td style="text-align:left;">
No
</td>
<td style="text-align:left;">
No
</td>
<td style="text-align:left;">
</td>
<td style="text-align:left;">
</td>
</tr>
<tr>
<td style="text-align:left;font-weight: bold;">
gender_source_value
</td>
<td style="text-align:left;">
This field is used to store the biological sex of the person from the
source data. It is not intended for use in standard analytics but for
reference only.
</td>
<td style="text-align:left;">
Put the assigned sex at birth of the person as it appears in the source
data.
</td>
<td style="text-align:left;">
varchar(50)
</td>
<td style="text-align:left;">
No
</td>
<td style="text-align:left;">
No
</td>
<td style="text-align:left;">
No
</td>
<td style="text-align:left;">
</td>
<td style="text-align:left;">
</td>
</tr>
<tr>
<td style="text-align:left;font-weight: bold;">
gender_source_concept_id
</td>
<td style="text-align:left;">
Due to the small number of options, this tends to be zero.
</td>
<td style="text-align:left;">
If the source data codes asigned sex at birth in a non-standard
vocabulary, store the concept_id here.
</td>
<td style="text-align:left;">
integer
</td>
<td style="text-align:left;">
No
</td>
<td style="text-align:left;">
No
</td>
<td style="text-align:left;">