Transcriptome-wide analysis of differential expression in perturbation atlases

Transcriptome-wide analysis of differential expression in perturbation atlases

Single-cell CRISPR screens such as Perturb-seq enable transcriptomic profiling of genetic perturbations at scale. However, the data produced by these screens are noisy, and many effects may go undetected. Here we introduce transcriptome-wide analysis of differential expression (TRADE)—a statistical model for the distribution of true differential expression effects that accounts for estimation error appropriately. TRADE estimates the ‘transcripto…

Fern Transcriptomics Uncover Cell Wall Evolution Innovations

In the realm of plant evolution, ferns occupy a pivotal yet enigmatic position. As one of the earliest groups of vascular plants, their evolutionary story stretches back over 360 million years, paralleling the ascent of tree-like euphyllophytes that would come to dominate terrestrial ecosystems. Despite their ancient lineage and ecological importance, the genetic underpinnings of ferns remain largely uncharted territory. This gap reflects the da…