stratum corneum of esophageal epithelium #3424
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Hi, thanks for your contributions! I don't see any changes in this PR? In earlier commits it looked like PMID xrefs at the term level which we should disallow |
src/ontology/uberon-edit.obo
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| [Term] | ||
| id: UBERON:8700003 | ||
| name: stratum corneum of esophageal epithelium | ||
| def: "The outermost layer of the stratified squamous epithelium lining the esophagus, composed of several layers of flattened, anucleated keratinocytes called corneocytes. It forms the primary protective barrier against mechanical, chemical, and microbial insults, while regulating permeability and contributing to tissue integrity. This layer is characterized by corneocytes embedded in a lipid-rich extracellular matrix, providing mechanical reinforcement and maintaining essential barrier functions of the esophageal lining." [doi:10.1038/gimo15, PMID:21126700, PMID:26019440] |
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I could not find anything in the provided references describing the stratum corneum of esophageal epithelium as containing anucleated keratinocytes (corneocytes). I believe corneocytes are more commonly associated with the keratinized cells of the skin. The esophagus typically has a non-keratinized or partially keratinized stratified squamous epithelium, where the outermost cells retain their nuclei and do not form corneocytes as seen in the skin
src/ontology/uberon-edit.obo
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| [Term] | ||
| id: UBERON:8700003 | ||
| name: stratum corneum of esophageal epithelium | ||
| def: "The outermost layer of the stratified squamous epithelium lining the esophagus, composed of several layers of flattened, anucleated keratinocytes called corneocytes. It forms the primary protective barrier against mechanical, chemical, and microbial insults, while regulating permeability and contributing to tissue integrity. This layer is characterized by corneocytes embedded in a lipid-rich extracellular matrix, providing mechanical reinforcement and maintaining essential barrier functions of the esophageal lining." [doi:10.1038/gimo15, PMID:21126700, PMID:26019440] |
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I would also suggest removing the details about anucleated if there is no supporting evidence specific to the esophagus as I found that the state of the nucleus is not consistent across species. For example, cells in the human esophageal stratum corneum (and other mammals) seem to retain their nuclei, whereas in mice they do not (https://doi.org/10.1152/ajpgi.00088.2015, https://en.wikipedia.org/wiki/Stratified_squamous_epithelium).
src/ontology/uberon-edit.obo
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| [Term] | ||
| id: UBERON:8700003 | ||
| name: stratum corneum of esophageal epithelium | ||
| def: "The outermost layer of the stratified squamous epithelium lining the esophagus, composed of several layers of flattened, anucleated keratinocytes called corneocytes. It forms the primary protective barrier against mechanical, chemical, and microbial insults, while regulating permeability and contributing to tissue integrity. This layer is characterized by corneocytes embedded in a lipid-rich extracellular matrix, providing mechanical reinforcement and maintaining essential barrier functions of the esophageal lining." [doi:10.1038/gimo15, PMID:21126700, PMID:26019440] |
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I would suggest editing the definition a little bit ie.
The outermost layer of the stratified squamous epithelium lining the esophagus, composed of several layers of flattened epithelial cells that are partially or non-keratinized. This layer provides a protective barrier against mechanical and chemical insults, contributing to tissue integrity and regulating permeability through its apical cell membranes and intercellular junctional complexes.
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Easier to close and start a new branch than fix |
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Fix issues as requested by Caroline. Let's check if we hit taxon constraint violations again. |
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This PR has not seen any activity in the past month; if nobody comments or reviews it in the next week, the PR creator will be allowed to proceed with merging without explicit approval, should they wish to do so. |
Caroline-99
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Caroline-99
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@JABelfiore Thank you for the changes. Everything looks good. I have approved the PR, but I believe that an Uberon core team member needs to review/approve it before you can merge it.
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This PR has not seen any activity in the past month; if nobody comments or reviews it in the next week, the PR creator will be allowed to proceed with merging without explicit approval, should they wish to do so. |
definition and refs