biostudies-literatureHe PMedical Research CouncilRosetreesWellcome Trust4841-4860.e25https://www.ebi.ac.uk/biostudies/studies/S-EPMC7618435biostudies-literatureUnknown185(25)We present a multiomic cell atlas of human lung development that combines single-cell RNA and ATAC sequencing, high-throughput spatial transcriptomics, and single-cell imaging. Coupling single-cell methods with spatial analysis has allowed a comprehensive cellular survey of the epithelial, mesenchymal, endothelial, and erythrocyte/leukocyte compartments from 5-22 post-conception weeks. We identify previously uncharacterized cell states in all compartments. These include developmental-specific secretory progenitors and a subtype of neuroendocrine cell related to human small cell lung cancer. Our datasets are available through our web interface (https://lungcellatlas.org). To illustrate its general utility, we use our cell atlas to generate predictions about cell-cell signaling and transcripCellA human fetal lung cell atlas uncovers proximal-distal gradients of differentiation and key regulators of epithelial fates.PMC7618435MR/S035907/1MR/P009581/1M899MC_PC_17230222275/Z/20/ZMR/R015635/1G108/596MR/W00111X/1109146/Z/15/ZMR/S036334/1MR/R006237/1203144/Z/16/Z225221MR/S005579/1Meyer KBDong ZMamanova LTuong ZKJeng QRawlins ELBolt LPett JPMadissoon EGoh IDann ESun DSuo CYoshida MNikolic MZRichardson LWilbrey-Clark AHe PPolanski KDabrowska MHe XJanes SMLim KMarioni JCBarker RATeichmann SAfalseA human fetal lung cell atlas uncovers proximal-distal gradients of differentiation and key regulators of epithelial fates.We present a multiomic cell atlas of human lung development that combines single-cell RNA and ATAC sequencing, high-throughput spatial transcriptomics, and single-cell imaging. Coupling single-cell methods with spatial analysis has allowed a comprehensive cellular survey of the epithelial, mesenchymal, endothelial, and erythrocyte/leukocyte compartments from 5-22 post-conception weeks. We identify previously uncharacterized cell states in all compartments. These include developmental-specific secretory progenitors and a subtype of neuroendocrine cell related to human small cell lung cancer. Our datasets are available through our web interface (https://lungcellatlas.org). To illustrate its general utility, we use our cell atlas to generate predictions about cell-cell signaling and transcrip2022-01-01T00:00:00Z2022 Dec2026-06-05T23:19:15.585Z2026-05-23T03:13:51.8ZS-EPMC76184353649375610.1016/j.cell.2022.11.005