Human Gut Cell Atlas (HGCA) v1 - Stromal Lineage

Contractile Pericytes

Full Name: contractile pericyte
Closest Ontology Term: pericyteCL:0000669
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.: pericyteCL:0000669
Ontology Assessment Disagreements with any aspect of the Cell Ontology.: Pericytes in the gut tend to sub-cluster based on differential expression of functional programs, mostly paracrine/secretory modules versus contractile modules. This could also be a state change
Marker Gene Evidence Gene markers used by researcher to assign this cell annotation.: RERGL, NTRK2
Canonical Marker Genes: NTRK2, RERGL, ACTA2
Rationale: Defined by RERGL and NTRK2, suggesting a pericyte subset with enhanced contractile apparatus.

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