Property talk:P684
Documentation
orthologous gene in another species (use with 'species' qualifier)
| Description | orthologous genes | |||||||||
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| Represents | orthology (Q22687794) | |||||||||
| Data type | Item | |||||||||
| Domain | genes (note: this should be moved to the property statements) | |||||||||
| Allowed values | (should be a gene too, how to identify items about genes remains to be determined) (note: this should be moved to the property statements) | |||||||||
| Example | RELN (Q414043) → Reln (Q14331135) CRH (Q14819907) → crhb (Q29748327) | |||||||||
| Source | HomoloGene @ U.S. National Center for Biotechnology Information | |||||||||
| Lists | ||||||||||
| Proposal discussion | Proposal discussion | |||||||||
| Current uses |
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| Search for values |
List of violations of this constraint: Database reports/Constraint violations/P684#Symmetric, SPARQL
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This property is being used by: Please notify projects that use this property before big changes (renaming, deletion, merge with another property, etc.) |
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Species qualifier edit
I had no time to reply on the proposal page, but after all that may be better to post it here :). Is it useful to add a "species" qualifier to this property. That seeems logically needless, as the species should be added to each item anyway, but that may make queires simpler and more efficient. --Zolo (talk) 09:49, 10 July 2013 (UTC)
- I also think that we don't really need the qualifier. --Tobias1984 (talk) 10:00, 10 July 2013 (UTC)
Millions of symmetric constraint violations edit
@Andrawaag, Sebotic, Gstupp:, as operators of the ProteinBoxBot, and @Magnus Manske: as operator of the GeneDBot: it turns out that there are now ~2.75 million instances where a gene noted as having an ortholog in another species is not itself noted on its orthologs in the same way. Could these issues be resolved through some action on your part? Mahir256 (talk) 19:37, 7 April 2019 (UTC)
not efficient spacewise edit
Really this would be better modeled by creating ortholog group items and linking to them with a property "ortholog group". Real life database: omabrowser.org. With the current scheme there will be potentially dozens (or hundreds with bacteria genes) links per gene created.
To be precise, OMA contains orthology relations for 3.8M genes of >2000 species in 920k groups with 12M links, so there are on average >12 members per group. With this data modeled as groups there is one link per gene and >12 links per group to yield 15.8M links. With the current scheme applied there would be >11 links on every gene, i.e. 42M links. It's quadratic in the average size of groups, which keeps growing as more organisms are sequenced. --SCIdude (talk) 15:36, 6 September 2019 (UTC)