Chemical Concentration increased in disease states

biolink / biolink-model

Schema and generated objects for biolink data model and upper ontology

https://biolink.github.io/biolink-model/

Other

172 stars 71 forks source link

Chemical Concentration increased in disease states #317

Open mmayers12 opened 4 years ago

mmayers12 commented 4 years ago

This issue is in reference to DrugMechDB conversion to biolink, see issue #314

Similar to issue #316, Chemical ELEVATED_IN Disease is present in DrugMechDB. The meaning of this does not necessarily imply causality. Instead it is simply seen that this chemical has an increase in the presence of this disease. Not sure if this could potentially be a marker then?

porpholobilinogen ELEVATED_IN Acute intermittent porphyria
protoporphyrin IX ELEVATED_IN erythropoietic protoporphyria

nlharris commented 3 years ago

@vdancik do you have any comment on this?

nlharris commented 3 years ago

What is the status of this?

sierra-moxon commented 3 years ago

In the chemical WG: lets look at this in the context of qualifier/modifier work and see what to do.

sierra-moxon commented 1 year ago

I think in this case, we could have a molecular phenotype to disease association where the increased amount of the chemical could be a phenotype of the disease, depending on the provenance of the actual statement.

Another representation would be something like this:
subject: chemical
subject_aspect_qualifier: abundance
subject_direction_qualfier: increased 
predicate: associated_with
object: disease

@vdancik - do either of these suggestions make sense to you?