Added association for environmental process association - issue #1560 #1561
Conversation
| minimum_cardinality: 2 | ||
| conditioned by qualifier: | ||
| description: >- | ||
| This property applies to the qualified association and either upregulates or downregulates it. It can accept any combination of 0 to 2 state variables and processes. |
There was a problem hiding this comment.
I'm curious how this relates to the regulates predicate:
biolink-model/biolink-model.yaml
Line 2820 in ac34f0b
and the
upregulated direction qualifier? Would you happen to have an example eenvironmental process association with all fields filled out that I can look at? (or in paragraph form/plain text)
| range: molecular entity | ||
|
|
||
| eenvironmental process association: | ||
| is_a: association |
There was a problem hiding this comment.
is the extra "e" here meaningful?
| - process context qualifier | ||
| - conditioned by qualifier | ||
| - ecosystem context qualifier | ||
| slot_usage: |
There was a problem hiding this comment.
thanks for the detail notes here, they really help!
| in_subset: | ||
| - ecolink | ||
|
|
||
| conditioned by qualifier: |
There was a problem hiding this comment.
could you please add some examples here - I am not quite sure I fully understand what "conditioned by" means?
- can it have a value of [
upregulates,downregulates] in one record? - how does it relate to the direction qualifier suite (the enumeration for this qualifier has values
upregulatedanddownregulated). - how does it relate to the
regulatespredicate?
Maybe the necessity of this slot means we should think about breaking the association into two edges? I'm not sure; maybe an example would help?
| description: >- | ||
| Sample/biosample datamodel | ||
| ecolink: |
There was a problem hiding this comment.
now that we have a ecolink linkml schema, maybe we can change the subsets to mappings? :)
sierra-moxon
left a comment
sierra-moxon
left a comment
There was a problem hiding this comment.
-
more examples on the PR or in the schema itself would be helpful for the "conditioned by" slot.
-
it would be lovely to change the subset to a series of mappings for each new component (to the ecolink schema).
-
possibly typo in association name
Thank you for the detailed and informative association class! Its very well done.
2 participants
First draft of
environmental process associationfor discussion and to be added to Biolink Model.