Molecular and cellular dynamics of the developing human neocortex

The development of the human neocortex is a highly dynamic process and involves complex cellular trajectories controlled by cell-type-specific gene regulation. Here, we collected paired single-nucleus chromatin accessibility and transcriptome data from 38 human neocortical samples encompassing both the prefrontal cortex and primary visual cortex. These samples span five main developmental stages, ranging from the first trimester to adolescence. In parallel, we performed spatial transcriptomic analysis on a subset of the samples to illustrate spatial organization and intercellular communication. This atlas enables us to catalog cell type-, age-, and area-specific gene regulatory networks underlying neural differentiation. Moreover, combining single-cell profiling, progenitor purification, and lineage-tracing experiments, we have untangled the complex lineage relationships among progenitor subtypes during the transition from neurogenesis to gliogenesis in the human neocortex. We identifie..., , , # Data from: Molecular and cellular dynamics of the developing human neocortex at single-cell resolution

[https://doi.org/10.5061/dryad.2280gb612](https://doi.org/10.5061/dryad.2280gb612)

We collected paired single-nucleus chromatin accessibility and transcriptome data (10x Multiome) from the developing human neocortex.

We collected MERFISH data (Vizgen MERSCOPE) from the developing human neocortex.

We collected scRNA-seq data (10x Flex) from cultured slices treated with and without somatostatin receptor (SSTR) agonists.

We collected scRNA-seq data (10x 3' v3.1) from FACS-isolated glial progenitor cells (GPCs) during in vitro differentiation.

## Description of the data and file structure

For 10x Multiome data:

* The 10x Genomics Cellranger ARC output files, including atac_fragments.tsv.gz and atac_fragments.tsv.gz.tbi, and filtered_feature_bc_matrix.h5 for each sample (38 samples in total). We used GRCh38 Reference - 2020-A-2.0.0 as the reference file. Detailed information and f...