Property talk:P1060
Documentation
process by which a pathogen is transmitted, equivalent to "transmitted by" in the relation ontology http://purl.obolibrary.org/obo/RO_0002451
Description | How a pathogen is transmitted. Follows the pathogen transmission ontology from OBO. | ||||||||||||
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Represents | pathogen transmission (Q525512) | ||||||||||||
Data type | Item | ||||||||||||
Domain | According to this template:
types of disease (Q12136)
According to statements in the property:
When possible, data should only be stored as statementsdisease (Q12136) | ||||||||||||
Allowed values | types of pathogen transmission (Q525512) (note: this should be moved to the property statements) | ||||||||||||
Example | influenza (Q2840) → airborne transmission (Q11986959) chickenpox (Q44727) → contact transmission (Q15304512) droplet infection (Q871752) | ||||||||||||
Source | Scientific publications (note: this information should be moved to a property statement; use property source website for the property (P1896)) | ||||||||||||
Tracking: usage | Category:Pages using Wikidata property P1060 (Q47461895) | ||||||||||||
Lists |
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Proposal discussion | Proposal discussion | ||||||||||||
Current uses |
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Search for values |
List of violations of this constraint: Database reports/Constraint violations/P1060#Type Q12136, SPARQL
List of violations of this constraint: Database reports/Constraint violations/P1060#Value type Q525512, SPARQL
This property is being used by:
Please notify projects that use this property before big changes (renaming, deletion, merge with another property, etc.) |
Examples edit
These examples were used during the discussion:
- transmission process = mosquito borne transmission (Q15304532)
- parasite = Plasmodium (Q130948) (genus) ((an additional property))
- vector = Anopheles (Q158597) (genus - and actually only the females) ((an additional property))
- transmission process = (im not sure in this case? maybe:vehicle-borne ingestion)
- parasite = Hepatozoon (Q1153950) (genus) ((an additional property))
- vector = Ixodoidea (Q82645) (suborder - and actually only the females) ((an additional property))
- tuberkolosis
- transmission process = airborne
Comments edit
You should also consider that parasite and vector could be used as independent statements and not as qualifiers. This would increase compatibility with the current specifications of SemanticWeb. Another consideration is that the vector could also be included in transmission process by creating further subclass of (P279)-items in the ontological tree:
- transmission process = Anopheles gambiae borne transmission (Q15304534) (and actually only the females of that suborder)
- parasite = Plasmodium (Q130948) (genus) ((an additional property))
or even:
- transmission process = female anopheles borne
- parasite = Plasmodium (Q130948) (genus) ((an additional property)) --Tobias1984 (talk) 10:45, 7 January 2014 (UTC)
- Having parasite and vector as independent statements might also make it easier to add suitable inverse properties to the parasite and vector items. For instance, Triatoma dimidiata (Q3015504) is one of several bugs transmitting Chagas disease (Q649558). --Daniel Mietchen (talk) 02:04, 8 January 2014 (UTC)
Ontology edit
This following represents the ontology of pathogen transmission as suggested by the Open Biological and Biomedical Ontology Foundry Ontologies (Q4117183):
Pathogen transmission class hierarchy
- Sorry for not reading this page and not discussing here, but I've introduced horizontal transmission (Q4254955) and vertical transmission (Q2834381) into the tree. And I added some items. As a result, this is the current tree:
- pathogen transmission (Q525512)
- horizontal transmission (Q4254955)
- direct transmission (Q15304504)
- indirect transmission (Q15304518)
- vertical transmission (Q2834381)
- horizontal transmission (Q4254955)
- Bold items are changed from former state. --Okkn (talk) 18:52, 17 August 2016 (UTC)
How to specify objects of this property edit
As I mentioned in the property proposal discussion, I am concerned about the hierarchy of this ontology, in that it attempts to recapitulate sub-branches of the biological taxonomy tree in order to describe the details of the transmission process. I still think that a qualifier that identifies the species would be much more appropriate here, but @Emw: disagrees, on the basis that W3C standards don't natively support n-ary relationships. I think this is misguided, because: A, Wikidata has qualifiers and has/will have a standard way to "reify" them into RDF (see mw:Wikidata/Development/RDF#Statements_with_qualifiers), and B, sometimes, as in this example, qualifiers really are the "right" way to do something, and anything else would be a bad fit. The currently proposed set of allowed values is bad because they are classes as opposed to individuals, which does not make sense. We have an ongoing discussion about that in Wikidata:Project_chat#Question_about_classes.2C_and_.27instance_of.27_vs_.27subclass.27, but at least in the case of sex or gender (P21), which also takes a class as its object, it makes sense to think of the subject as being an instance of (for example) the "female" class. In this case, on the other hand, it wouldn't make sense to say that a given disease is an instance of, for example, "vehicle-borne fomite". So, I don't understand how this class hierarchy would translate into meaningful data on which inferences could be drawn, automatically (as opposed to ad-hoc queries). Klortho (talk) 06:55, 9 January 2014 (UTC)
Regarding the Pathogen Transmission ontology -- (aka transmission process) -- I am the developer for this ontology, I have moved it to GitHub (transmission_process.obo and trans.owl files in: https://github.com/DiseaseOntology/HumanDiseaseOntology/tree/master/src/ontology, to enable us to look at this further, to expand the term, as outlined in the above discussion, to define this in the context of Wikidata qualifiers. Lschriml.