Disagreements with any aspect of the Cell Ontology.
In follow-up work, we noticed that these cells also express TBET (TBX21, see Roessner et al., 2024), which is consistent with age-associated B cells (ABC). These ABC accumulate with age and are increased in autoimmune diseases (see Cancro et al., 2020).
The community needs to conclude whether these cells are referred to as "FCRL4+ memory B cell", "atypical B cells", "age-associated B cells" or "autoimmune B cells"
Marker Gene Evidence
Gene markers used by researcher to assign this cell annotation.
This cluster expresses markers consistent with FCRL4/5+ atypical memory B cells (CD27, TNFRSF13B, FCRL4, FCRL5) as described by Li et al, 2020. Consistent with the paper, these cells express IFI30, suggesting that they are responding to interferon gamma.
The annotation provided in this first version comprises 42 categories that provide a stable categories to classify single-cell transcriptomes of SLOs, useful for tools like Azimuth (see external URLs). In the next version, we will add a more detailed classification, encompassing all cell types and states identified in the tonsil atlas. A validation cohort was included to confirm the presence and accuracy of each annotation this latter level, using criteria such as cell neighborhood preservation, conservation of bona fide marker genes, and annotation confidence derived from the KNN classifier. For a full description and interpretation of this validation cohort, please refer to the final section of the manuscript.
