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The immune system plays a key role in various diseases such as cancer, autoimmune disorders and infections. It has been recently shown that cell surface protein markers on peripheral blood mononuclear cells (PBMCs) can be predictive of response to therapies 1, but measurements of such markers is technically limited in the number of cells and markers that can be assessed. Single-cell RNA technology allows the measurement of the entire transcriptome in tens of thousands of cells, and therefore has the potential to survey the immune system in more depth and reveal rare cell states. However, no large single-cell datasets for immune cell states exist. Moreover, attempts to combine smaller distinct datasets are often hindered by batch effects stemming from differences in sample handling, single-cell technologies and computational analyses. We created a large curated multi-omic single-cell human PBMC atlas …