Human PBMC atlas - MonoDC2 cells

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Cell Metadata

CD14_IFN1_LY6E_ISG15

Full Name: IFN1 LY6E/ISG15+ CD14-positive, CD16-negative classical monocyte
Closest Ontology Term: CD14-positive, CD16-negative classical monocyteCL:0002057
Synonyms Terms that have the same, or nearly the same, meaning as the selected cell type.: classical monocytes
Category Class of which the cell type is a subclass.: CD14-positive, CD16-negative classical monocyteCL:0002057
Ontology Assessment Disagreements with any aspect of the Cell Ontology.: Cluster expresses canonical classical monocyte markers and LY6E+ in addition to interferon sensing genes
Marker Gene Evidence Gene markers used by researcher to assign this cell annotation.: LY6E, ISG15, RSAD2, IFI44L, MX1, IFIT1, IFI6
Canonical Marker Genes: CD14
Rationale: Cluster expresses canonical classical monocyte markers and LY6E+ in addition to interferon sensing genes
Rationale DOI: https://doi.org/10.4049/jimmunol.1401249

Set of Labels Description: Cell annotations were generated through iterative hierarchical clustering. Broad lineages were first identified and then recursively subdivided into finer sublineages and sub-sublineages (e.g., T → CD4 T → Effector CD4 T). Clusters were iteratively re-clustered at multiple resolutions, split or merged based on biological evidence, and refined through repeated quality-control steps. Final annotations were determined by consensus of an international group using canonical marker genes, one-vs-all and all-vs-all differential expression analyses, and cluster relationships within the hierarchical framework. Low-quality cells, doublets, and contaminating populations were identified and removed throughout the annotation process; following each round of removal, datasets were reprocessed and re-clustered to improve cluster resolution and biological consistency before subsequent annotation refinement.
Annotation Method: manual

Full Name: IFN1 LY6E/ISG15+ CD14-positive, CD16-negative classical monocyte
Closest Ontology Term: CD14-positive, CD16-negative classical monocyteCL:0002057
Synonyms Terms that have the same, or nearly the same, meaning as the selected cell type.: classical monocytes
Category Class of which the cell type is a subclass.: CD14-positive, CD16-negative classical monocyteCL:0002057
Ontology Assessment Disagreements with any aspect of the Cell Ontology.: Cluster expresses canonical classical monocyte markers and LY6E+ in addition to interferon sensing genes
Marker Gene Evidence Gene markers used by researcher to assign this cell annotation.: LY6E, ISG15, RSAD2, IFI44L, MX1, IFIT1, IFI6
Canonical Marker Genes: CD14
Rationale: Cluster expresses canonical classical monocyte markers and LY6E+ in addition to interferon sensing genes
Rationale DOI: https://doi.org/10.4049/jimmunol.1401249

Set of Labels Description: Cell annotations were generated through iterative hierarchical clustering. Broad lineages were first identified and then recursively subdivided into finer sublineages and sub-sublineages (e.g., T → CD4 T → Effector CD4 T). Clusters were iteratively re-clustered at multiple resolutions, split or merged based on biological evidence, and refined through repeated quality-control steps. Final annotations were determined by consensus of an international group using canonical marker genes, one-vs-all and all-vs-all differential expression analyses, and cluster relationships within the hierarchical framework. Low-quality cells, doublets, and contaminating populations were identified and removed throughout the annotation process; following each round of removal, datasets were reprocessed and re-clustered to improve cluster resolution and biological consistency before subsequent annotation refinement.
Annotation Method: manual