The data are derived from whole human PBMC from 2 healthy donors, profiled by SingleCell RNAseq (10X platform) at two ICA sites, (Broad/Boston and MtSinai/NYC). All 4 datasets were integrated using CCA (Butler et al) for construction of the tSNE coordinates. Assignment of each cell to a cell-type follows a tiered process. Cells are first classified and assigned to primary immune lineages classification by fitting their expression programs (multiple regression and naive Bayes optimization) based on ICA gene lists for lineage call, and some manual curation. Cells in each primary lineage are then assigned to “sub-lineages” based on correlation to reference cell sets.
PBMC samples sorted by Michal Slyper, Julia Waldman and Angela Magnuson.