HCA Gut Cell Atlas v1 Stromal Lineage

Main

Cell Metadata

vascular endothelial Lacteals

Ontology Term: endothelial cell of lymphatic vesselCL:0002138
Synonyms Terms that have the same, or nearly the same, meaning as the selected cell type.: unknown
Category Class of which the cell type is a subclass.: endothelial cell of lymphatic vesselCL:0002138
Ontology Assessment Disagreements with any aspect of the Cell Ontology.: —
Marker Gene Evidence Gene markers used by researcher to assign this cell annotation.: PROX1, CD36, TCF15, RELN
Canonical Marker Genes: PROX1, CD36, TCF15
Rationale: Lacteals here were annotated due to a strong fatty acid and glycerol uptake program. We should check if stroma_13_0 are present mostly in duodenum, consistent with villus lacteals being more prominent in small intestine. RELN here points to crypt

Set of Labels Description: Cell annotations (Prelim annotation) are based on the finest possible label that could be used to describe each of the ~500 clusters found during integration and subclustering
Annotation Method: both
Algorithm Name: scVI
Algorithm Version: 1.3.2
Algorithm URL: https://github.com/scverse/scvi-tools

Main

Cell Metadata

Ontology Term: endothelial cell of lymphatic vesselCL:0002138
Synonyms Terms that have the same, or nearly the same, meaning as the selected cell type.: unknown
Category Class of which the cell type is a subclass.: endothelial cell of lymphatic vesselCL:0002138
Ontology Assessment Disagreements with any aspect of the Cell Ontology.: —
Marker Gene Evidence Gene markers used by researcher to assign this cell annotation.: PROX1, CD36, TCF15, RELN
Canonical Marker Genes: PROX1, CD36, TCF15
Rationale: Lacteals here were annotated due to a strong fatty acid and glycerol uptake program. We should check if stroma_13_0 are present mostly in duodenum, consistent with villus lacteals being more prominent in small intestine. RELN here points to crypt

Set of Labels Description: Cell annotations (Prelim annotation) are based on the finest possible label that could be used to describe each of the ~500 clusters found during integration and subclustering
Annotation Method: both
Algorithm Name: scVI
Algorithm Version: 1.3.2
Algorithm URL: https://github.com/scverse/scvi-tools