Geographic Coordinates

Provenance and use of geolocation data

Geographic point coordinates are assigned to each sample after review of existing information from associated publications or repository information for their ”best available” geographic origin using a precedence of:

  1. sample specific data (e.g. from article text)
  2. experiment location
  3. first author proxy

For publications w/o accessible sample data in general the “author proxy” is being used, unless specific annotations have been found in the article.

A more detailed discussion of the problems and benefits of geographic provenance tagging can be found in Carrio-Cordo et al., DATABASE 2020.

Geolocs Service

The Progenetix API provides a service for retrieving geographic coordinates as point coordinates, for the majority of cities.

GeoLocation schema

The current version of the JSON Schema data schema for the geolocation object can be accessed through the Progenetix services API.

Michael Baudis  2021-03-26
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