need design patterns for new infectious disease classification

[nicolevasilevsky]

related to #3217

[nicolevasilevsky]

related to: https://github.com/monarch-initiative/mondo/issues/3609 Note- rheumatic disorder is now a child of post-bacterial infection, but is a single child. We should investigate if other classes should be classified under this. And if there is a pattern we could create so we can auto-classify

[nicolevasilevsky]

patterns that are needed:

• [ ] 'disease caused by reactivation of latent infectious agent', example 'herpes zoster'

[nicolevasilevsky]

revisit 'post-viral disorder'

• [ ] request new object property from RO: 'disease is consequence of'
• [ ] revise pattern accordingly

@sabrinatoro

[sabrinatoro]

Definition of the existing relation ‘disease has infectious agent’ = A relationship between a disease and an infectious agent where the material basis of the disease is an infection with some infectious agent.

@cmungall what does 'material basis of' mean?

I am trying to determine whether ‘disease has infectious agent’ should be a parent term for more precise relations representing that the infection is the direct or indirect cause of the disease.

Note: Similarly, other disease relations have 'the physical basis of' in their definition. What does this mean? (e.g. 'disease has basis in dysfunction of' = A relation that holds between the disease and a material entity where the physical basis of the disease is a disorder of that material entity that affects its function.)

(note: maybe this particular comment should be in the RO repo. I can put it there if we feel that's where it should be)

[sabrinatoro]

@cmungall additional question: What would be the difference between 'disease arises from' and 'disease has basis in' ? Thanks!

[nicolevasilevsky]

@sabrinatoro is there any other action needed or did that last PR finalize this ticket? Thanks!

[sabrinatoro]

@nicolevasilevsky I think this PR finalize this ticket. Closing.