Skip to content
New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

Pattern(s) needed for glands of mucosa & their epithelia #3309

Open
dosumis opened this issue Jul 13, 2024 · 0 comments
Open

Pattern(s) needed for glands of mucosa & their epithelia #3309

dosumis opened this issue Jul 13, 2024 · 0 comments
Assignees
Labels
HCA Human Cell Atlas

Comments

@dosumis
Copy link
Contributor

dosumis commented Jul 13, 2024

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.

@dosumis dosumis added the HCA Human Cell Atlas label Jul 13, 2024
Sign up for free to join this conversation on GitHub. Already have an account? Sign in to comment
Labels
HCA Human Cell Atlas
Projects
None yet
Development

No branches or pull requests

3 participants