Skip to content
New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

Add 'small molecule regulator' relations to the MF shape #299

Open
ukemi opened this issue Mar 9, 2023 · 2 comments
Open

Add 'small molecule regulator' relations to the MF shape #299

ukemi opened this issue Mar 9, 2023 · 2 comments
Assignees

Comments

@ukemi
Copy link

ukemi commented Mar 9, 2023

No description provided.

@ukemi
Copy link
Author

ukemi commented Mar 9, 2023

In doing QC on the latest Reactome import I have determined that many of the Shex failures are due to the lack of a 'has small molecule regulator/activator/inhibitor' clause in the MF shape. We need to add this to get the models to pass.

@ AND EXTRA a {
a ( @ OR @ ) {1};
enabled_by: ( @ OR @ ) {0,1};
part_of: @ *;
has_part: @ *;
occurs_in: @ {0,1};
has_output: ( @ OR @ ) *;
has_input: ( @ OR @ ) *;
has_primary_input: ( @ OR @ ) *;
has_primary_output: ( @ OR @ ) *;
directly_provides_input_for: ( @ OR @ ) *;
regulates: ( @ OR @ ) *;
negatively_regulates: ( @ OR @ ) *;
positively_regulates: ( @ OR @ ) *;
directly_regulates: ( @ OR @ ) *;
directly_negatively_regulates: ( @ OR @ ) *;
directly_positively_regulates: ( @ OR @ ) *;
indirectly_regulates: ( @ OR @) *;
indirectly_positively_regulates: ( @ OR @ ) *;
indirectly_negatively_regulates: ( @ OR @ ) *;
constitutively_upstream_of: ( @ OR @ ) *;
removes_input_for: ( @ OR @ ) *;
causally_upstream_of_or_within: ( @ OR @ OR @ ) *;
causally_upstream_of_or_within_negative_effect: @ *;
causally_upstream_of_or_within_positive_effect: @ *;
causally_upstream_of: ( @ OR @ OR @ ) *;
causally_upstream_of_negative_effect: ( @ OR @ OR @ ) *;
causally_upstream_of_positive_effect: ( @ OR @ OR @ ) *;
happens_during: ( @ OR @ OR @ ) *;
} // rdfs:comment "A molecular function"

@vanaukenk
Copy link
Contributor

Okay, I will add them.

Sign up for free to join this conversation on GitHub. Already have an account? Sign in to comment
Labels
None yet
Projects
None yet
Development

No branches or pull requests

3 participants