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A cursory evaluation of a biosample record from GOLD and the same biosample record from bioregistry:
Case 1: GOLD
sample-annotator git:(spatil/pull-insdc-identifiers) ✗ curl -u user_name:password https://gold.jgi.doe.gov/rest/nmdc/biosamples\?biosampleGoldId\=Gb0239939 [{"biosampleGoldId":"Gb0239939","biosampleName":"Banana cropland soil microbial communities from Singapore - Seedorf71.JP2soil.20","ncbiTaxId":null,"ncbiTaxName":null,"sampleCollectionSite":"Banana cropland soil","geographicLocation":"Singapore","latitude":1.43492266,"longitude":103.7112946,"ecosystemPathId":4213,"ecosystem ":"Environmental","ecosystemCategory":"Terrestrial","ecosystemType":"Soil","ecosystemSubtype":"Unclassified","specific cosystem":"Agricultural land","altitudeInMeters":null,"altitudeInMeters2":null,"dateCollected":null,"depthInMeters":null,"depthInMeters2":null,"descri ption":"Banana cropland soil microbial communities from Singapore","hostDiseases": [],"elevationInMeters":19,"elevationInMeters2":null,"geoLocation":"Singapore","habitat":"Banana cropland soil","hostGender":null,"hostName":null,"hostNcbiTaxid":null,"isoCountry":"Singapore","longhurst":null,"nitrateConcentration ":null,"oxygenConcentration":null,"ph":null,"pressure":null,"salinity":null,"salinityConcentration":null,"sampleBodySite":null,"s ampleBodySubsite":null,"sampleCollectionTemperature":null,"subsurfaceDepthInMeters":null,"subsurfaceDepthInMeters2":n ull,"visitNum":null,"mixsPackage":"Standard","envoBroadScale":{"id":"ENVO_01000245","label":"cropland biome"},"envoLocalScale":{"id":"ENVO_00000119","label":"planted forest"},"envoMedium": {"id":"ENVO_02000059","label":"surface soil"},"modDate":"2022-04-08","addDate":"2019-09-03","contacts": [{"name":"Janet Jansson","email":"[email protected]","jgiSsoId":"62","roles":["other"]},{"name":"Antonio David Paez Espino","email":"[email protected]","jgiSsoId":"8722","roles":["other"]},{"name":"Emily Graham","email":"[email protected])","jgiSsoId":"null","roles":["submitter"]},{"name":"Emily Graham","email":"[email protected]","jgiSsoId":"52018","roles":["other"]},{"name":"Ruonan Wu","email":"[email protected]","jgiSsoId":"59483","roles":["other"]},{"name":"Russell Neches","email":"[email protected]","jgiSsoId":"55080","roles":["other"]}]}]%
See that for biosampleGoldId="Gb0239939", we have sampleCollectionTemperature set to NULL.
Case 2: bioregistry
Follow this link to find the corresponding bioregistry record: https://www.ebi.ac.uk/biosamples/samples/SAMEA7724289
You'll see that there is temperature is set to 32 degree celsius.
What is the reason for this inconsistency between the same records in the two places? Is GOLD not up to date?
CC: @cmungall @emileyfadrosh
The text was updated successfully, but these errors were encountered:
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A cursory evaluation of a biosample record from GOLD and the same biosample record from bioregistry:
Case 1: GOLD
See that for biosampleGoldId="Gb0239939", we have sampleCollectionTemperature set to NULL.
Case 2: bioregistry
Follow this link to find the corresponding bioregistry record: https://www.ebi.ac.uk/biosamples/samples/SAMEA7724289
You'll see that there is temperature is set to 32 degree celsius.
What is the reason for this inconsistency between the same records in the two places? Is GOLD not up to date?
CC: @cmungall @emileyfadrosh
The text was updated successfully, but these errors were encountered: