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Material type #31

Closed gurnoor1990 closed 3 years ago

gurnoor1990 commented 4 years ago

Defination missing

joerivandervelde commented 4 years ago

This used to be linkout to CDISC: https://evs.nci.nih.gov/ftp1/CDISC/SDTM/Archive/SDTM%20Terminology%202012-03-23.html

gurnoor1990 commented 4 years ago

Definition : Type of material collected, e.g. blood, muscle, bone etc

gurnoor1990 commented 4 years ago

Material types code book still need to be decided

joerivandervelde commented 4 years ago

Suggestion, coming from RD3: https://github.com/MIABIS/miabis/wiki/Structured-data-and-lists#material-type

joerivandervelde commented 4 years ago

need: "Cell-free DNA", treated differently!

https://bioportal.bioontology.org/ontologies/SNOMEDCT?p=classes&conceptid=http%3A%2F%2Fpurl.bioontology.org%2Fontology%2FSNOMEDCT%2F726740008

joerivandervelde commented 4 years ago

list probably not complete, multiple isolates from plasma/urine possible

joerivandervelde commented 4 years ago

perhaps use SPREC codes here as well? https://www.liebertpub.com/doi/abs/10.1089/bio.2017.0109

gurnoor1990 commented 4 years ago

Check with pathologist.

joerivandervelde commented 3 years ago

Chosen MIABIS list for time being. See https://github.com/fairgenomes/fairgenomes-semantic-model.