A Curated Compendium of Transcriptomic Data for the Exploration of Neocortical Development

Authors

Shreyash Sonthalia, Ricky S. Adkins, Joshua Orvis, Guangyan Li, Xoel Mato Blanco, Alex Casella, Jinrui Liu, Genevieve Stein-O’Brien, Brian Caffo, Ronna Hertzano, Anup Mahurkar, Jesse Gillis, Jonathan Werner, Shaojie Ma, Nicola Micali, Nenad Sestan, Pasko Rakic, Gabriel Santpere, Seth A. Ament, Carlo Colantuoni

Citation

Sonthalia, S., et al. A curated compedium of transcriptomic data for the exploration of neocortical development. bioRxiv (2024).

Summary

We have assembled a curated compendium of public multi-omic data for the exploration of neocortical development in NeMO Analytics. Applying our joint matrix decomposition approaches, we perform an in silico transcriptomic dissection of neocortical excitatory neurogenesis, identifying conserved molecular dynamics in mammalian neurogenesis, as well as primate-specific programs. While the transcription factors that initiate laminar neuronal identities are expressed very early, we elucidate the prolonged maturational trajectories of layer-specific neurons in vivo and in pluripotent stem cell derived neural organoid models.

Nature Collection

Sonthalia et al., BioRxiv

Resource Name	Resource URL	Description
NeMO Analytics	https://nemoanalytics.org/landing/nec	Data Exploration: Neocortex Devo Landing Page. Gene-level transcriptomic data from 188 published studies of neocortical development, including >33 million single cells.