Healthy intestinal mucosa: a control reference for inflammatory bowel disease

Goblet progenitor

Ontology Term: goblet cellCL:0000160
Synonyms Terms that have the same, or nearly the same, meaning as the selected cell type.: chalice cell
Category Class of which the cell type is a subclass.: secretory epithelial cellCL:1100001
Ontology Assessment Disagreements with any aspect of the Cell Ontology.: —
Marker Gene Evidence Gene markers used by researcher to assign this cell annotation.: TFF3, SPINK4, ATOH1, MUC2, ITLN1, CLCA1
Canonical Marker Genes: TFF3, MUC2, CLCA1, ITLN1, REG4
Negative Marker Genes Genes expected to be absent, or expressed at a notably low level, in these cells, and whose absence supports the assignment of this cell annotation.: —
Rationale: This goblet subtype is likely the immature goblet for its expression of progenitor markers like ATOH1 and SPINK4.
Rationale DOI: https://doi.org/10.1038/nri3608

Set of Labels Description: The annotation is a result of manual and algorithmic annotation using multiple public reference datasets.
Annotation Method: both
Algorithm Name: scVI/scANVI
Algorithm Version: 1.0.1
Algorithm URL: https://github.com/scverse/scvi-tools
Annotation Transfer Reference: https://www.gutcellatlas.org
Annotation Transfer Description: We transfer the annotations from the public reference to our data set, then assess the cluster transcriptomic similarity, transferred label homogeneity and canonical marker expressions for final annotations.