[Ontology-editors] draft cross-product announcement email

[David Hill]

This looks good.

David

Midori Harris wrote:
> Hi,
>
> This is my first draft of an email to GO friends about adding xps to 
> the go_ext file. It could use some reasons why xps are wonderful 
> (there's a placeholder right now); other edits welcome too.
>
> m
>
> subject:
> Announcement: Introduction of cross-product definitions in extended GO 
> ([date])
>
> body:
> Dear GO Friends,
>
> We are pleased to announce that we are about to introduce 
> cross-product definitions, in the form of intersection_of tags, into 
> the "extended" version of GO 
> (ontology/obo_format_1_2/gene_ontology_ext.obo). The target date for 
> this addition is [date].
>
> This addition may have considerable impact on your tools and analyses 
> because:
>
>  1. Loading scripts that use gene_ontology_ext.obo will need to be 
> modified to take the intersection_of tags into account by [date].
>  2. GO analysis tools that use gene_ontology_ext.obo will need to be 
> modified to take the intersection_of tags into account by [date].
>  3. Some intersection_of tags will use new relationship types that 
> will not be used elsewhere in the GO, and scripts and tools will have 
> to be modified to take these new relationship types into account.
>
> The first cross-products in GO will be "internal"; that is, they 
> reference only terms within the GO. For example, the Biological 
> Process (BP) ontology term "regulation of mitotic recombination" 
> references two other BP terms, "biological regulation" and "mitotic 
> recombination". Internal cross-products may also link branches of the 
> GO, as in "nucleotide-excision repair complex", a Cellular Component 
> (CC) term that references a CC term ("protein complex") and a BP term 
> ("nucleotide-excision repair").
>
> [reasons for xps]
>
> The principles of cross-products are documented at:
>
> [linky]
>
> The intersection_of tag is documented in the OBO Format specifications:
>
> http://www.geneontology.org/GO.format.obo-1_2.shtml
>
> Please let us know if you have questions or comments about this plan.
>
> On behalf of the GO Consortium,
> [name(s)]
> _______________________________________________
> Ontology-editors mailing list
> Ontology-editors at geneontology.org
> http://fafner.stanford.edu/mailman/listinfo/ontology-editors

-- 
David P. Hill, Ph.D.
Bioinformatics Scientist: Ontology Development
Gene Ontology Consortium
The Jackson Laboratory
www.geneontology.org
www.informatics.jax.org
tel:207-288-6430