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Add guidelines for geolocation information to the Metadata annotation…
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… section of tge Docs
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bussec committed Nov 14, 2023
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Expand Up @@ -232,3 +232,24 @@ experiments SHOULD be annotated as follows:
reliably determined.
* ``reverse_pcr_primer_target_location``: Locus and position
according to the respective set of reverse primers.


Geolocation information
-----------------------

For questions regarding population genetics, the information about the
membership of a given individual in a (potentially) distinct population
group is of high interest. However, no reasonably complete ontology
exists for the concept of "ethnicity", which in addition is limited
to humans (not to mention the challenge of assigning consistent values
to this property). Therefore, the AIRR Schema uses annotation of the
location of birth of an individual and the location where a given sample
was taken as imperfect but at least operationalizable substitute.

The respective properties ``Subject``.``location_birth`` and
``Sample``.``collection_location`` are ontology controlled and expect
values that are geographic locations. The provided value SHOULD
allow to resolve at least the country-level information of the annotated
location. Higher granularity SHOULD only be provided, if this does not
exposed the data subject to the risk of being re-identified via based on
or assisted by this information.

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