How are control endpoints calculated?

For most endpoints the simple case holds - those individuals who are not cases are controls. However, some endpoints have stricter limitations on the controls, meaning that controls are removed based on certain criteria. For example, for endpoint names ending in :

• _EXALLC all cancers have been removed from the controls

• _EXMORE ("Exclude more") - an endpoint-specific stricter control definition has been used. You can learn more what this is by looking at the control definitions.

(These additionally removed control individuals will be “NA” in the data.)

From the links below you can get the descriptions of all the columns in the endpoint file:

• Where the finngen endpoint and control description files are located.

• Description of endpoint and endpoint longitudinal data