obo-relations

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Literal decorations and SPARQL

3

``` tomc@cypher ~/junq $ cut -f3- -d' ' ro.nt | wc -l 5280 tomc@cypher ~/junq $ cut -f3- -d' ' ro.nt | grep "^

TomConlin

Clarify and document scope of RO

7

Is RO intended to house ALL relations used in OBO ontologies? Different branches of RO have different levels of specificity, which may simply reflect demand. However, it seems that some...

ramonawalls

Add equivalentProperties axioms linking to CommonCoreOntologies

1

See https://github.com/CommonCoreOntology/CommonCoreOntologies Note that they are using the 2005 set of relations with the old URIs https://github.com/CommonCoreOntology/CommonCoreOntologies/blob/master/BFO%20Version/ro.owl I will alert them these are no longer supported This has a lot...

cmungall

participates in -- what sorts of sub-relations should we identify?

13

first ideas: is agent of is patient of is principal participant of

phismith

Create an export of human-readable SWRL rules

1

RO has many SWRL rules. These are only visible in Protege if you go to Views and select Rules:  Note most of the rules are annotated The rules don't...

cmungall

Consider "modifies frequency or severity of condition" instead of "contributes to condition" for RO:0003304

5

Currently RO has the term "contributes to condition" which is a parent of: - contributes to frequency of disease - contributes to severity of condition - ameliorates condition - exacerbates...

kshefchek

Define participant relationships using roles

3

experiment: try defining participation relations in terms of roles. E.g. p has-output c p has_participant (c and has_role some r) This could be seen as pointless semantic shuffling, but there...

cmungall

Term request - frequency_in_condition

10

It would be useful to have a relationship to link an instance of a phenotype to the frequency seen in a cohort of patients diagnosed with a condition. This could...

kshefchek

expressed in response to

2

The plant trait ontology people need to relate the expression of a trait to an environmental stimulus it is expressed in response to. see https://github.com/Planteome/plant-trait-ontology/blob/add-dp/patterns/response.yaml I don't believe we have...

dosumis

parasite vs pathogen

2

Are there any guidelines for using parasite relations vs pathogen relations? Is pathogen_of restricted to single-celled organisms? Where do we want to draw the line? The example I'm thinking of...

diatomsRcool