The emergence of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) has
caused a devastating pandemic. Although most people infected with SARS-CoV-2 develop …

The pathogenesis of idiopathic pulmonary fibrosis (IPF) involves a complex interplay of cell
types and signaling pathways. Recurrent alveolar epithelial cell (AEC) injury may occur in …

Single-cell technologies have transformed our understanding of human tissues. Yet, studies
typically capture only a limited number of donors and disagree on cell type definitions …

A complete understanding of how exposure to environmental substances promotes cancer
formation is lacking. More than 70 years ago, tumorigenesis was proposed to occur in a two …

Severe COVID-19 is characterized by persistent lung inflammation, inflammatory cytokine
production, viral RNA and a sustained interferon (IFN) response, all of which are …

Mapping the spatial distribution and molecular identity of constituent cells is essential for
understanding tissue dynamics in health and disease. We lack a comprehensive map of …

COVID-19, which is caused by SARS-CoV-2, can result in acute respiratory distress
syndrome and multiple organ failure,,–, but little is known about its pathophysiology. Here …

Respiratory failure is the leading cause of death in patients with severe SARS-CoV-2
infection,, but the host response at the lung tissue level is poorly understood. Here we …

Epithelial stem cells serve critical physiological functions in the generation, maintenance
and repair of diverse tissues through their ability to self-renew and spawn more specialized …

Computational trajectory inference enables the reconstruction of cell state dynamics from
single-cell RNA sequencing experiments. However, trajectory inference requires that the …