Human Gut Cell Atlas (HGCA) v1 - Myeloid Lineage

Mast Cells

Ontology Term: mast cellCL:0000097
Synonyms Terms that have the same, or nearly the same, meaning as the selected cell type.: mastocyte
Category Class of which the cell type is a subclass.: granulocyteCL:0000094
Ontology Assessment Disagreements with any aspect of the Cell Ontology.: —
Marker Gene Evidence Gene markers used by researcher to assign this cell annotation.: CPA3, TPSB2, TPSAB1, CTSG, HPGDS, KIT
Canonical Marker Genes: CPA3, TPSB2, TPSAB1
Negative Marker Genes Genes expected to be absent, or expressed at a notably low level, in these cells, and whose absence supports the assignment of this cell annotation.: —
Rationale: Mast cells, CPA3, TPSAB1, TPSB2, KIT, HPGDS and GATA2. We pick up both the mature tryptase/chymase mast cells and a cycling mast subset.
Rationale DOI: https://doi.org/10.1182/bloodadvances.2022006969

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