HCA Gut Cell Atlas v1 Stromal Lineage

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Cell Metadata

vascular endothelial Lymphatic

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 cellCL:0000115
Ontology Assessment Disagreements with any aspect of the Cell Ontology.: —
Marker Gene Evidence Gene markers used by researcher to assign this cell annotation.: LYVE1, PROX1, MMRN1, MRC1
Canonical Marker Genes: LYVE1, PROX1, PDPN
Rationale: Lymphatic endothelial cells are here defined by LYVE1, PROX1, MMRN1 and MRC1 and form multiple clusters (Stroma_13_1–13_5) that are present across many datasets, including immune-interacting states.

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

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 cellCL:0000115
Ontology Assessment Disagreements with any aspect of the Cell Ontology.: —
Marker Gene Evidence Gene markers used by researcher to assign this cell annotation.: LYVE1, PROX1, MMRN1, MRC1
Canonical Marker Genes: LYVE1, PROX1, PDPN
Rationale: Lymphatic endothelial cells are here defined by LYVE1, PROX1, MMRN1 and MRC1 and form multiple clusters (Stroma_13_1–13_5) that are present across many datasets, including immune-interacting states.

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