Human Gut Cell Atlas (HGCA) v1 - Myeloid Lineage

Classical Monocytes

Ontology Term

classical monocyteCL:0000860

Synonyms

Terms that have the same, or nearly the same, meaning as the selected cell type.

CD14+ monocyte, inflammatory monocyte, monocyte

Category

Class of which the cell type is a subclass.

monocyteCL:0000576

Ontology Assessment

Disagreements with any aspect of the Cell Ontology.

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Marker Gene Evidence

Gene markers used by researcher to assign this cell annotation.

VCAN, FCN1, S100A8, S100A9

Canonical Marker Genes

VCAN, FCN1, S100A8

Rationale

FCN1, VCAN, S100A8, S100A9 and LYZ. classical monocytes performing inflammatory role, these can mix with M1 macrophages, which we did not annotate

Inherited from hgca_celltype_v1

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