Human PBMC atlas - HSCs

Main

Cell Metadata

HSC_MPP_CD38lo (HSC-like)

Full Name: quiescent CD34-positive, CD38-negative hematopoietic stem cell
Closest Ontology Term: CD34-positive, CD38-negative hematopoietic stem cellCL:0001024
Synonyms Terms that have the same, or nearly the same, meaning as the selected cell type.: unknown
Category Class of which the cell type is a subclass.: hematopoietic stem cellCL:0000037
Ontology Assessment Disagreements with any aspect of the Cell Ontology.: Cluster with canonical HSC markers but CD38 low and ribosomal genes suggesting quiescence
Marker Gene Evidence Gene markers used by researcher to assign this cell annotation.: AVP, RPS10
Canonical Marker Genes: CD34
Rationale: Cluster with canonical HSC markers but CD38 low and ribosomal genes suggesting quiescence
Rationale DOI: https://doi.org/10.1038/bcj.2011.35

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: quiescent CD34-positive, CD38-negative hematopoietic stem cell
Closest Ontology Term: CD34-positive, CD38-negative hematopoietic stem cellCL:0001024
Synonyms Terms that have the same, or nearly the same, meaning as the selected cell type.: unknown
Category Class of which the cell type is a subclass.: hematopoietic stem cellCL:0000037
Ontology Assessment Disagreements with any aspect of the Cell Ontology.: Cluster with canonical HSC markers but CD38 low and ribosomal genes suggesting quiescence
Marker Gene Evidence Gene markers used by researcher to assign this cell annotation.: AVP, RPS10
Canonical Marker Genes: CD34
Rationale: Cluster with canonical HSC markers but CD38 low and ribosomal genes suggesting quiescence
Rationale DOI: https://doi.org/10.1038/bcj.2011.35

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