Closes #3043 NTR neuroendocrine system #3045
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Closes #3043 NTR neuroendocrine system
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#gogoeditdiff |
Here's a diff of how these changes impact the classified ontology (on -simple file):Ontology comparisonLeft
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Ontology importsOntology annotationsneuroendocrine system
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Here's a diff of your edit file (unreasoned)Ontology comparisonLeft
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Ontology importsOntology annotationsneuroendocrine system
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src/ontology/uberon-edit.obo
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| [Term] | ||
| id: UBERON:8600018 | ||
| name: neuroendocrine system | ||
| def: "A regulatory system of the body that integrates the nervous system and the endocrine system. This system consists of a set of cells organized in single organs and diffuse elements, sharing co-production of amine hormone/transmitters, peptide hormone/transmitters and specific markers of neural determination." [PMID:15481802, Wikipedia:endocrinology] |
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Consider using the term "neurohormone" as the current definition does not capture all neurohormones (e.g., steroid hormones).
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Consider the following definition, although I haven't found no-cost access to the online reference:
Neuroendocrine systems can be defined as the sets of neurons, glands and non-endocrine tissues, and the neurochemicals, hormones, and humoral signals they produce and receive, that function in an integrated manner to collectively regulate a physiological or behavioral state.
From: Handbook of Neuroendocrinology, 2012
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Thank you for your comments and providing this reference.
The new updated definition is the following:
A regulatory system of the body that integrates the nervous system and the endocrine system. This system involves specialized neuroendocrine cells primarily located in the hypothalamus, pituitary gland, and various organs. The neuroendocrine system functions through the release of neurotransmitters and hormones, enabling communication between these systems to govern vitally important processes that include growth, reproduction, metabolism and energy homeostasis, electrolyte and water balance, and responses to stress.
https://doi.org/10.1016/B978-0-12-375097-6.10001-0
PMID:15481802
Wikipedia:endocrinology
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The second sentence: "involves" and "various organs" are vague.
src/ontology/uberon-edit.obo
Outdated
| [Term] | ||
| id: UBERON:8600018 | ||
| name: neuroendocrine system | ||
| def: "A regulatory system of the body that integrates the nervous system and the endocrine system. This system involves specialized neuroendocrine cells primarily located in the hypothalamus, pituitary gland, and various organs. The neuroendocrine system functions through the release of neurotransmitters and neurohormones, enabling communication between these systems to govern vitally important processes that include growth, reproduction, metabolism and energy homeostasis, electrolyte and water balance, and responses to stress." [doi:10.1016/B978-0-12-375097-6.10001-0, PMID:15481802, Wikipedia:endocrinology] |
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Beware that this definition (specifically the part “involves […] cells primarily located in the hypothalamus, pituitary gland, and various organs”) makes the term vertebrate-specific. Invertebrates may lack a hypothalamus or a pituitary gland but they do have a “neuroendocrine system” (see for example Hartenstein 2006), so if it is intended that this term should be vertebrate-specific then this should be clearly stated; otherwise the definition should avoid referring to vertebrate-specific structures or at least use precautions around them.
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Thank you @gouttegd, the intention is that is not vertebrate-specific, and anything that is vertebrate-specific will be in a comment.
…ture that are part of the nes
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The definition has been updated to be more general to non-vertebrates species and not be vague (although I don't want to list the tissues that also have neuroendocrine cells, as that is variable depending on the species).
relationships have been added. Once this ticket is merged and uberon has a new release, this term will be imported to CL to add |
| relationship: has_part CL:0000165 ! neuroendocrine cell | ||
| relationship: overlaps UBERON:0001016 ! nervous system |
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With the updated logical definition, would this be redundant?
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I don't think so. If K overlaps T, that means there is C that is the overlapping part. If B is part of K, it does not mean that it is part of C (overlapping T).
For clarification I have added a diagram and changed the letters:
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Is there a plan to revise 'neuroendocrine cell'?
If not, this may still be redundant if keeping 'has part' some 'neuroendocrine cell'.
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yes, neuroendocrine cell will not be a neuron after the revision.
Closes #3043 NTR neuroendocrine system