The "B Naive” annotation represents the main cluster of naive (antigen-inexperienced) B cells, characterized by a clear and homogeneous expression of key markers including FCER2 (CD23), TCLA1, IGHM, and IGHD. In the “Cell types level 3 20230508” annotation set, this cluster will be further refined and subclustered into 8 distinct subpopulations.
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.
