Cell Annotation
Platform

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snRNA-seq of human optic nerve and optic nerve head - all cells

Main

Cell Metadata

Ontology Term: fenestrated endothelial cellCL:0000666
Synonyms Terms that have the same, or nearly the same, meaning as the selected cell type.: fenestrated capillary endothelial cell
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.: PLVAP, CA4, BTNL9
Canonical Marker Genes: PLVAP, CA4, BTNL9
Rationale: An endothelial sub class that expresses PLVAP, CA4, and BTNL9
Rationale DOI: https://doi.org/10.1073/pnas.2306153120

Set of Labels Description: We used scVI for data integration and then manually annotated each cell cluster based on marker gene expression
Annotation Method: both
Algorithm Name: scVI
Algorithm Version: scvi-tools 1.3.0
Algorithm URL: https://github.com/scverse/scvi-tools