HCA Gut Cell Atlas v1 Myeloid Lineage

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Cell Metadata

Macrophages Tissue Resident

Ontology Term: tissue-resident macrophageCL:0000864
Synonyms Terms that have the same, or nearly the same, meaning as the selected cell type.: M0 macrophage
Category Class of which the cell type is a subclass.: macrophageCL:0000235
Ontology Assessment Disagreements with any aspect of the Cell Ontology.: —
Marker Gene Evidence Gene markers used by researcher to assign this cell annotation.: C1QA, C1QB, C1QC, SELENOP
Canonical Marker Genes: C1QA, C1QB, C1QC
Rationale: High C1QA, C1QB, C1QC, SELENOP and phagocytic/lysosomal programs point to the long lived tissue resident macrophages that are distinct from monocyte derived circulating lineages
Rationale DOI: 10.1038/s41586-021-03852-1

Set of Labels Description: Cell annotations (Prelim annotation) are based on the finest possible label that could be used to describe each of the ~500 clusters found during integration and subclustering
Annotation Method: both
Algorithm Name: scVI
Algorithm Version: 1.3.2
Algorithm URL: https://github.com/scverse/scvi-tools

Ontology Term: tissue-resident macrophageCL:0000864
Synonyms Terms that have the same, or nearly the same, meaning as the selected cell type.: M0 macrophage
Category Class of which the cell type is a subclass.: macrophageCL:0000235
Ontology Assessment Disagreements with any aspect of the Cell Ontology.: —
Marker Gene Evidence Gene markers used by researcher to assign this cell annotation.: C1QA, C1QB, C1QC, SELENOP
Canonical Marker Genes: C1QA, C1QB, C1QC
Rationale: High C1QA, C1QB, C1QC, SELENOP and phagocytic/lysosomal programs point to the long lived tissue resident macrophages that are distinct from monocyte derived circulating lineages
Rationale DOI: 10.1038/s41586-021-03852-1

Set of Labels Description: Cell annotations (Prelim annotation) are based on the finest possible label that could be used to describe each of the ~500 clusters found during integration and subclustering
Annotation Method: both
Algorithm Name: scVI
Algorithm Version: 1.3.2
Algorithm URL: https://github.com/scverse/scvi-tools