Species in the Rosaceae tribe Spiraeeae occupy diverse habitats and vary strikingly in growth form and leaf morphology. Still, no reference transcriptomes have been published for the tribe, and its t...

ALT: Zoidberg Laughing Evilly

Martínez-Mateu et al. develop a computational framework that uses longitudinal blood transcriptomes from patients with immune-mediated inflammatory diseases to prioritize combination therapies. They…

Cellular world models aim to predict how cells respond to genetic perturbations, analogous to world models in reinforcement learning. Perturbation response models are evaluated almost exclusively by global Pearson correlation between predicted and observed transcriptomes. We show this metric is dom…

Abstract. Plants are multicellular systems composed of highly specialized cell types, whose distinct transcriptomes, proteomes, and metabolomes collectivel

Cell · 4 new citations this week.

Background Sex-associated differences in hippocampal function are well-recognized, yet the molecular mechanisms underlying these variations remain incompletely understood. In the CA1 region, the spatial organization of the transcriptome between the soma and neuropil supports local mRNA translation, a mechanism essential for synaptic plasticity. Using long-read direct RNA sequencing, we conducted a targeted comparison of the CA1 soma and neuropil transcriptomes between male and estrus-phase female rats. We investigated differences in isoform usage and transcript composition, including UTR...

In a transcriptome, isoforms share most of their sequence, and gene families add further near-copies. Yet most long-read mappers treat each isoform as a separate target and repeat seeding, chaining an...