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Resolve remaining MeSH Tree Numbers on native CL classes #2113

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ghost opened this issue Aug 18, 2023 · 0 comments · Fixed by #2114
Closed

Resolve remaining MeSH Tree Numbers on native CL classes #2113

ghost opened this issue Aug 18, 2023 · 0 comments · Fixed by #2114
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maintenance Simple fixes identified during maintenance reviews or while working on other issues

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ghost commented Aug 18, 2023

Following up on the work done in #1558, this issue resolves the remaining MeSH Tree Numbers that were unmapped in native CL classes.

See Action items below:

ID Label Current TreeNumber Proposed UniqueID mapping Action
CL:0000568 amine precursor uptake and decarboxylation cell MESH:A11.070 D001078 "APUD Cells" Replace Tree Number with Unique ID. Move reference annotation to whole class, not defintion.
CL:0000132 corneal endothelial cell MESH:A09.371.060.067.31 N/A- Did not find. Did find D004728 "Endothelium, Corneal", (A09.371.060.067.318), which appropriately appears as an annotation on UBERON:0001985 'corneal endothelium'. Remove Tree Number. If a substitute is demanded, consider adding MESH:D004728, but may be redundant (already on UBERON term). Consider adding MESH:D055954 "Corneal Endothelial Cell Loss", but may not be appropriate scope (pathology) although it also references cell type.
CL:0000333 migratory neural crest cell MESH:A16.254.600 N/A- Did not find. Remove Tree Number. No suitable MeSH substitute identified. Replace with dbxref doi:10.1016/j.stem.2015.02.017
CL:0000577 type EC enteroendocrine cell MESH:A03.492.766.440.250 D004759 "Enterochromaffin Cells" Replace Tree Number with Unique ID. Move reference annotation to whole class, not defintion.
CL:0000588 odontoclast MESH:A11.329.679 N/A- Did not find. Remove Tree Number. No suitable substitute identified.
CL:0000547 proerythroblast MESH:A11.118.290.350.200 N/A- Did not find. Closest appears to be D004900 "Erythrolasts" with related concept "Proerythroblasts". Remove Tree Number. No suitable substitute identified.

Additionally, update editor doc advising to use MeSH Unique ID numbers, not Tree Numbers, in annotations.

@ghost ghost self-assigned this Aug 18, 2023
ghost pushed a commit that referenced this issue Aug 18, 2023
@ghost ghost added the maintenance Simple fixes identified during maintenance reviews or while working on other issues label Aug 21, 2023
ghost pushed a commit that referenced this issue Aug 22, 2023
Addresses #2113 Update MESH Tree Number cross-references
@ghost ghost linked a pull request Aug 22, 2023 that will close this issue
@ghost ghost closed this as completed Aug 22, 2023
This issue was closed.
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