Concerted changes in the pediatric single-cell intestinal ecosystem before and after anti-TNF blockade
Endth/Art
- Ontology Term
- endothelial cell of arteryCL:1000413
- SynonymsTerms that have the same, or nearly the same, meaning as the selected cell type.
- arterial endothelial cell
- CategoryClass of which the cell type is a subclass.
- endothelial cellCL:0000115
- Marker Gene EvidenceGene markers used by researcher to assign this cell annotation.
- PLVAP, VWF, CLDN5, CAV1, GJA4
- Canonical Marker Genes
- unknown
- Rationale
- endothelial based on VWF, PLVAP, claudin 5 CLDN5. When compared to other endothelial clusters, these highly express CALD1 and some GJA4 expression (DOI) - suggesting artery endothelial cells
- Rationale DOI
- 10.1002/path.5751
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/