Human Gut Cell Atlas (HGCA) v1 - Stromal Lineage

Myofibroblasts

Ontology Term: myofibroblast cellCL:0000186
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.: fibroblastCL:0000057
Ontology Assessment Disagreements with any aspect of the Cell Ontology.: —
Marker Gene Evidence Gene markers used by researcher to assign this cell annotation.: ACTA2, TAGLN, DCN
Canonical Marker Genes: ACTA2, TAGLN, MYH11
Rationale: Myofibroblasts and SMCs could be mixed up in some places. I had used HHIF to annotated SMCs but in absense of GREM1/GREM2 it's possible these SMCs are really myofibroblasts.

Set of Labels Description: Cell annotations based on two rounds of subclustering with scVI integration, sample_id as batch key. Cell annotations were refined by expert feedback based on "prelim annotation" on CAP. Prelim annotation is renamed "hgca_celltype_v0" here and the feedback on the "prelim annotation" is available by selecting a previous version of the Integrated Human Gut Atlas on CAP.
Annotation Method: both
Algorithm Name: scIB
Algorithm Version: 1.2.1
Algorithm URL: https://github.com/theislab/scib