Terms on Wikipedia that are not present in the Cell Ontology

[lubianat]

Following a bit what was described on #700, I am finishing the curation of Cell Ontology IDs on Wikidata.

This includes the mapping of current English Wikipedia pages about cells to CL.

The SPARQL query below lists all Wikipedia pages regarding cell types that could not be matched to the Cell Ontology:

• https://w.wiki/6J3P

It includes general terms like "plant cell" and "microbial cyst" which might not fit, and several abnormal cell types (e.g. "acanthocyte" and "Renshaw cell").

Some mappings are unclear, e.g. Wikipedia has "https://en.wikipedia.org/wiki/ILC2" and "https://en.wikipedia.org/wiki/Nuocyte", where CL has merged both concepts on http://purl.obolibrary.org/obo/CL_0001069. Probably an error on the Wikipedia end, but nevertheless worth noticing.

Some, however, seem really to be missing in CL (or at least missing as synonyms) , e.g. https://en.wikipedia.org/wiki/GnRH_neuron and https://en.wikipedia.org/wiki/T_helper_3_cell.

Here are queries particular for:

• Neurons with Wikipedia pages absent in CL: https://w.wiki/6J3U (@shawntanzk might be interested)
• Leukocytes with Wikipedia pages absent in CL: https://w.wiki/6J3Y (@addiehl might be interested)
• Other (non-neuron, non-immune) cells with Wikipedia pages absent in CL: https://w.wiki/6J3b

If any cells in the list are actually present in CL, let me know and I'll add the mapping on Wikidata.

[shawntanzk]

For brain cell types, I guess whoever takes over me will handle them. @dosumis I'll assign this to you for now and you can reassign then. Thanks

[ghost]

@lubianat, thank you for this ticket.

Looking at the first 30 results from https://w.wiki/6J3P, over half of them are out of scope for CL for the reasons you stated above (not animal cells, not normal cells). That said, this list can be helpful in locating some potentially missing cell types and synonyms and has been added to the CL new terms review list.

Regarding your specific examples, "GnRH neuron" is an exact synonym for CL:0011111 'gonadotropin releasing neuron', but this class looks like it needs revising wrt the label and definition. A T helper 3 cell type may be a potential new cell type... unsure if it would be a subclass of 'regulatory T cell' and would ask for @addiehl's input.

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