Single-cell biology is facing a crisis of sorts. Vast numbers of single-cell molecular profiles
are being generated, clustered and annotated. However, this is overwhelmingly ad hoc, and …

High-throughput single-cell transcriptomic approaches have revolutionized our view of gene
expression at the level of individual cells, providing new insights into their heterogeneity …

Quantifying the number of progenitor cells that found an organ, tissue or cell population is of
fundamental importance for understanding the development and homeostasis of a …

In the same way that a phylogeny summarizes the evolutionary history of species, a cell
lineage tree describes the process of clonal expansion, in which gene expression …

Cell type annotation is a fundamental task in the analysis of single-cell RNA-sequencing
data. In this work, we present CellO, a machine learning-based tool for annotating human …

Gene duplication is a key evolutionary phenomenon, prevalent in all organisms but
particularly so in plants, where whole genome duplication (WGD; polyploidy) is a major force …

In multicellular organisms, developmental history of cell divisions and functional annotation
of terminal cells can be organized into a cell lineage tree (CLT). The reconstruction of the …

Organoids have emerged as powerful model systems to study organ development and
regeneration at the cellular level. Recently developed microscopy techniques that track …

Rapid advance of experimental techniques provides an unprecedented in-depth view into
complex developmental processes. Still, little is known on how the complexity of multicellular …

Background NFκB drives acute vascular inflammation by activating gene expression
programs in endothelial cells to promote leukocyte recruitment. Numerous negative …