Fig. 1

Availability of gene expression data and metadata for 72 published scRNA-seq datasets. a Availability of processed gene expression matrices. b Availability of sample-level metadata, as exemplified by experimental condition (e.g., treatment vs. control). c Availability of cell-level metadata, as exemplified by cell type annotations for each cell barcode. d Sources from which cell type annotations were obtained. Light shades represent datasets for which two or more additional manual processing steps were required to obtain cell types. e Schematic overview of the differences in data reporting required for bulk vs. single-cell assays. Processed single-cell data is characterized by an additional level of cell-level metadata not captured by the sample-level metadata required for deposition of bulk datasets