obophenotype / obophenotype/uberon

Pattern(s) needed for glands of mucosa & their epithelia

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@Caroline-99 is already working on this.

Since Jul 13, 2024.

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Description

STATUS: DRAFT.

Motivating use case - we need a consistent set of terms for glandular epithelia in glands of various mucosa. These terms are needed to record the location of glandular epithelial cell type terms needed for HCA integration projects including for gut and respiratory system.

Gland patterns.:

The pattern of the submucosal gland term is OK.

image

Although:

  1. It might make more sense to say that the epithelia of the glands is continuous with the epithelia of the mucosa, rather than the whole gland being, as these glands can have a contractile component external to the gland.
  2. We have some leaf node terms for glands defined by morphology (e.g. alveolar gland
    http://purl.obolibrary.org/obo/UBERON_0013223Copy) that could be wired up to these. In that case we should use inference to classify by what they secrete.

i.e. a slightly modified pattern based on these term and generalised for other glands of the mucosa could work well.

patterns for epithelia of these glands. For the parts of the gland we have duct and acinus terms:

image

Maybe it's sufficient to make part_of terms to these rather than make epithelia terms, in which case we need a pattern for generating duct and acinus terms for specific subtypes.

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