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This wikibase is a shot at formalizing meanings for cell types and cell type descriptors. | This wikibase is a shot at formalizing meanings for cell types and cell type descriptors. | ||
There are, of course, well structured efforts with similar goals, such as the [Cell Ontology https://github.com/obophenotype/cell-ontology]. This is a bit more exploratory, and admittedly less structured. | |||
== Formal criteria == | == Formal criteria == | ||
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== Properties == | == Properties == | ||
== Basic classification properties == | |||
* [[Property:P1|instance of]] (e.g. a "human neuron" is an instance of "cell type (strictu sensu)") | |||
* [[Property:P2|subclass of]] (e.g. a "human neuron" is a subclass of "neuron") | |||
* [[Property:P8|Wikidata ID]] Close match on Wikidata (similar to [https://www.w3.org/TR/skos-reference/#L4858 skos:closeMatch]) | |||
== Cell type specific properties == | |||
These are properties that all items for instances of cell types should have | |||
=== Definition properties === | |||
These properties have the weight of complete definitions. They are indisputable, as they are part of the definition of the class. Changing definitions is advisable only for clarifications. | |||
The real-world existence might be challenged, but this is still unmodelled. | |||
* [[Property:P5|has scope]] - the taxon or taxons in the scope for this conceptualization of cell type (e.g. "human neuron" has scope "Homo sapiens") | |||
* [[Property:P6|natural language definition]] - a natural language definition of this cell type. (e.g. "human neuron" has natural language definition "cells capable of transmitting electrical impulses). | |||
** Note that the natural language definition will likely have some ambiguity, as this is a feature of natural languages. Ideally, the description should be described by dedicated properties, allowing computable definitions, but this is an arduous, at least decade-long task. The scope doesn't need to be stated again in the natural language definition, as it is already parsed my [[Property:P5|has scope]]. | |||
=== Description properties === | |||
These properties serve to describe the classes defined by the properties above. They are disputable, and may be seem as hypothesis regarding the defined cell types. | |||
== Model items == | == Model items == | ||
* [[Item:Q19|Type 2 AS DC (Technotype / Villani et al, 2017)]] | |||