HCA Gut Cell Atlas v1 Stromal Lineage

Main

Cell Metadata

SMC Outer Muscle Cells

Full Name: outer smooth muscle cells
Closest Ontology Term: smooth muscle cellCL:0000192
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.: smooth muscle cellCL:0000192
Ontology Assessment Disagreements with any aspect of the Cell Ontology.: —
Marker Gene Evidence Gene markers used by researcher to assign this cell annotation.: FOXF2-
Canonical Marker Genes: TAGLN, MYH11, ACTG2
Rationale: Outer longitudinal layer smooth muscle; distinguished from IMC by low FOXF2. Tissue section should be checked for these to ensure not myofibroblast

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

Full Name: outer smooth muscle cells
Closest Ontology Term: smooth muscle cellCL:0000192
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.: smooth muscle cellCL:0000192
Ontology Assessment Disagreements with any aspect of the Cell Ontology.: —
Marker Gene Evidence Gene markers used by researcher to assign this cell annotation.: FOXF2-
Canonical Marker Genes: TAGLN, MYH11, ACTG2
Rationale: Outer longitudinal layer smooth muscle; distinguished from IMC by low FOXF2. Tissue section should be checked for these to ensure not myofibroblast

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