Human Gut Cell Atlas (HGCA) v1 - Myeloid

cDC2

Ontology Term: CD11b-positive dendritic cellCL:0002465
Synonyms Terms that have the same, or nearly the same, meaning as the selected cell type.: cDC2
Category Class of which the cell type is a subclass.: dendritic cellCL:0000451
Ontology Assessment Disagreements with any aspect of the Cell Ontology.: —
Marker Gene Evidence Gene markers used by researcher to assign this cell annotation.: CD1C, TCTN3, FCER1A, CLEC10A, SPI1, SIRPA
Canonical Marker Genes: CD1C, FCER1A, CLEC10A
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: CD1C, CLEC10A, FCER1A, SIRPA, define antigen presenting type 2 conventional dendritic cells with CD11b positive identity and non crosspresenting functions
Rationale DOI: https://doi.org/10.1126/science.aah4573 https://doi.org/10.1016/j.cell.2019.06.029

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