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clinical-biomarkers / OBCI

https://clinical-biomarkers.github.io/biomarkerontology/
BSD 2-Clause "Simplified" License
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CIViC biomarker issues #21

Open DaniallMasood opened 1 month ago

DaniallMasood commented 1 month ago

mixed bag of things. will look into it and discuss with Darren on what needs to be done

nataled commented 1 week ago

What this means is that civic data contain various types of biomarker types, including things like 'overexpression' (which is not actually a problem, as this just means increased levels of ) and mutations and maybe others as well. Also, there is no cross-reference to the actual entity identifier in column D of the output. Instead the gene is indicated there. The gene information is useful, but is not the correct thing to put in that column. I'd expect something like a dbSNP identifier.