INTRODUCTION A reference atlas of human cell types is a major goal for the field. Here, we
set out to generate single-cell atlases of both gene expression (this study) and chromatin …

Spatial transcriptomics can reveal spatially resolved gene expression of diverse cells in
complex tissues. However, the development of computational methods that can use the …

An efficient, generalizable method for genome-wide mapping of single-cell histone
modifications or chromatin-binding proteins is lacking. Here, we develop CoBATCH …

Hundreds of millions of single cells have been analyzed to date using high throughput
transcriptomic methods, thanks to technological advances driving the increasingly rapid …

Mammalian organogenesis is a remarkable process. Within a short timeframe, the cells of
the three germ layers transform into an embryo that includes most of the major internal and …

Recent technological advances have enabled massively parallel chromatin profiling with
scATAC-seq (single-cell assay for transposase accessible chromatin by sequencing). Here …

Chromatin-state annotation using combinations of chromatin modification patterns has
emerged as a powerful approach for discovering regulatory regions and their cell type …

We applied a combinatorial indexing assay, sci-ATAC-seq, to profile genome-wide
chromatin accessibility in∼ 100,000 single cells from 13 adult mouse tissues. We identify 85 …

The recent advent of methods for high-throughput single-cell molecular profiling has
catalyzed a growing sense in the scientific community that the time is ripe to complete the …

The transcriptome of single cells can reveal important information about cellular states and
heterogeneity within populations of cells. Recently, single-cell RNA-sequencing has …