A cellular resolution spatial transcriptomic landscape of the adult human cortex
Dataset ID: STDS0000242
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Summary:
The higher-order cognitive functions of the human cortex rely on complex cellular structures, with diversity and spatial organization critical for specific functions. However, the molecular features and precise spatial organization of neural cells within the human cortex remain incompletely understood. Subcellular-level spatial transcriptomic sequencing and snRNA-seq offer a unique opportunity to explore and characterize neural cell organization across different cortical regions. Here, we mapped 14 human cortical regions, leading to a single-cell atlas comprising transcriptomic data from 1,121,772 nuclei and spatial profiles from 1,888,306 cells. The atlas reveals distinct expression patterns and spatial arrangements of neural cell types. Glutamatergic neurons show precise laminar patterns, with similar expression in adjacent areas. SST neurons fall into two transcriptional categories, corresponding to superficial and deep layer distributions. The atlas, integrated with functional networks, highlights correlations between neural cell types and cortical functions, uncovering cell-cell interactions and ligand-receptor patterns with regional differences in neuron-glia communication. It also deciphers transcriptomic differences and cellular composition in layer 4 and the stable subplate (layer 6b) across regions. Our findings offer insights into the cellular foundations of complex and intelligent regions within the human cortex.
Overall design:
To delineate the cortical spatial heterogeneity, spatial transcriptome sequencing was performed on 44 Stereo slides of 14 cortical regions about ~100k bins/slide, and with median cell number of 42916±16007/slide. The size of Stereo-seq used in this study is 10×10mm2 and Stereo-seq chips have spots with approximately 220nm diameter and a center-to-center distance of 500nm.
Technology:
Stereo-Seq
Platform:
DNBSEQ-T10
Species:
Homo sapiens
Tissues:
Brain
Sex:
Male
Citation:
Songren Wei et al., “Charting the Spatial Transcriptome of the Human Cerebral Cortex at Single-Cell Resolution,” bioRxiv, January 1, 2024, 2024.01.31.576150, https://doi.org/10.1101/2024.01.31.576150.
Submission date: 2024-04-29Update date: 2024-08-21
Sample number: 5Section number: 44
Contributors
Songren Wei; Meng Luo; Jiangping Xu; Rui Chen; Qinghua Jiang
Contact: weaweipoitier@gmail.com
Accessions
STOmicsDB Project ID: STT0000059