Goblet
- SynonymsTerms that have the same, or nearly the same, meaning as the selected cell type.
- chalice cell
- CategoryClass of which the cell type is a subclass.
- epithelial cellCL:0000066
- Marker Gene EvidenceGene markers used by researcher to assign this cell annotation.
- TFF3, FCGBP, ITLN1
- Rationale
- These aren't highly DE for mucins but they have most of the other defining markers for Goblet cells, such as TFF3 and FCGP (which are in the mucin pathway) and ITLN1, a molecule secreted by Goblet cells that marks bacteria for clearance.
Inherited from celltype
- Set of Labels Description
- In this paper we used an automated iterative subclustering algorithm to find hundreds of cell state clusters, after which we merged unsupported clusters and annotated each resulting cluster with a better-known cell subtype. The high-res cell state clusters are annotated as subtype.gene1.gene2, so in some cases we didn't directly name some commonly named subtypes, such as pericytes. When we run DE on the resulting subtypes, we find many canonical and scRNA-suggested marker genes.
- Annotation Method
- both
- Algorithm Name
- ARBOL
- Algorithm Version
- v1.0
- Algorithm URL
- https://github.com/jo-m-lab/ARBOL/
