Paneth
- SynonymsTerms that have the same, or nearly the same, meaning as the selected cell type.
- unknown
- CategoryClass of which the cell type is a subclass.
- epithelial cellCL:0000066
- Marker Gene EvidenceGene markers used by researcher to assign this cell annotation.
- KRT18, DEFA5, DEFA6, LYZ
- Rationale
- This is a keratin expressing epithelial celltype that is very strongly expressing DEFA6, DEFA5, and LYZ - matching canonical markers for Paneth cells.
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/
