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[go-friends] [go-discuss] Announcement: three new relationship types to be added to core GO file

Alan Ruttenberg alanruttenberg at gmail.com
Tue May 7 09:14:20 PDT 2013


How does happens_during differ from part_of?

Thanks,
Alan


On Tue, May 7, 2013 at 8:50 AM, Jane Lomax <jane at ebi.ac.uk> wrote:

>   Dear GO friends - we will be adding three new relationships to this
> core GO file:
>
> go.obo     http://purl.obolibrary.org/obo/go.obo
> go.owl     http://purl.obolibrary.org/obo/go.owl
>
> For more information about the content of these and other files, please
> see our beta ontology downloads page:
>
> http://beta.geneontology.org/page/download-ontology
>
> Note that this file is equivalent to these legacy files:
>
>
> ftp://ftp.geneontology.org/pub/go/ontology/obo_format_1_2/gene_ontology.1_2.obo
> ftp://ftp.geneontology.org/pub/go/ontology/gene_ontology_edit.obo
>
> so these files will be affected too.
>
> The relationships are *starts_with*, *ends_with* and *happens_during*.
> Their definitions from the OBO relations ontology are listed below.
>
> We'll start adding these to the file in 2 weeks, 21 May 2013. Let us know
> if you have any questions.
>
> many thanks,
>
> GO ontology editors
>
>
>
> From: http://code.google.com/p/obo-relations/
>
> [Typedef]
> id: RO:0002224
> name: starts with
> def: "x starts with y if and only if x has part y and the time point at which x starts is equivalent to the time point at which y starts. Formally:
> ?(y) = ?(x) ? ?(y) < ?(x), where ? is a function that maps a process to a start point, and ? is a function that maps a process to an end point." []
> property_value: IAO:0000112 "Every insulin receptor signaling pathway starts with the binding of a ligand to the insulin receptor" xsd:string
> property_value: IAO:0000114 IAO:0000125
> property_value: IAO:0000118 "started by" xsd:string
> is_transitive: true
> is_a: BFO:0000051 ! has part
> is_a: RO:0002222 ! temporally related to
> inverse_of: RO:0002223 ! starts
>
> [Typedef]
> id: RO:0002230
> name: ends with
> def: "x ends with y if and only if x has part y and the time point at which x ends is equivalent to the time point at which y ends. Formally: ?(y) > ?(x) ? ?(y) = ?(x), where ? is a function that maps a process to a start point, and ? is a function that maps a process to an end point." []
> property_value: IAO:0000114 IAO:0000125
> property_value: IAO:0000118 "finished by" xsd:string
> is_transitive: true
> is_a: BFO:0000051 ! has part
> is_a: RO:0002222 ! temporally related to
>
> [Typedef]
> id: RO:0002092
> name: happens_during
> comment: X happens_during Y iff: (start(Y) before_or_simultaneous_with start(X)) AND (end(X) before_or_simultaneous_with end(Y))
> property_value: IAO:0000118 "d" xsd:string
> property_value: IAO:0000118 "during" xsd:string
> is_transitive: true
> is_a: BFO:0000050 ! part of
> is_a: RO:0002093 ! ends_during
>
>
>
>
>
> _______________________________________________
> go-discuss mailing list
> go-discuss at lists.stanford.edu
> https://mailman.stanford.edu/mailman/listinfo/go-discuss
>
>
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