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Cited by 232Single-cell and spatial transcriptomicsNeuroscience and Neuropharmacology ResearchGenomics and Chromatin Dynamics

The DOI matches its Crossref record; 122 of the 122 references it cites were found in a registry or an index.

Single-cell spatial transcriptome reveals cell-type organization in the macaque cortex

Open access
Chen, Ao, Sun, Yidi, Lei, Ying, Li, Chao, Liao, Sha, Meng, Juan, Bai, Yiqin, Liu, Zhen, Liang, Zhifeng, Zhu, Zhiyong, Yuan, Nini, Yang, Hao, Wu, Zihan, Lin, Feng, Wang, Kexin, Li, Mei, Zhang, Shuzhen, Yang, Meisong, Fei, Tianyi, Zhuang, Zhenkun, Huang, Yiming, Zhang, Yong, Xu, Yuanfang, Cui, Luman, Zhang, Ruiyi, Han, Lei, Sun, Xing, Chen, Bichao, Li, Wenjiao, Huangfu, Baoqian, Ma, Kailong, Ma, Jianyun, Li, Zhao, Lin, Yikun, Wang, He, Zhong, Yanqing, Zhang, Huifang, Yu, Qian, Wang, Yaqian, Liu, Xing, Peng, Jian, Liu, Chuanyu, Chen, Wei, Pan, Wentao, An, Yingjie, Xia, Shihui, Lu, Yanbing, Wang, Mingli, Song, Xinxiang, Liu, Shuai, Wang, Zhifeng, Gong, Chun, Huang, Xin, Yuan, Yue, Zhao, Yun, Chai, Qinwen, Tan, Xing, Liu, Jianfeng, Zheng, Mingyuan, Li, Shengkang, Huang, Yaling, Hong, Yan, Huang, Zirui, Li, Min, Jin, Mengmeng, Li, Yan, Zhang, Hui, Sun, Suhong, Gao, Li, Bai, Yinqi, Cheng, Mengnan, Hu, Guohai, Liu, Shiping, Wang, Bo, Xiang, Bin, Li, Shuting, Li, Huanhuan, Chen, Mengni, Wang, Shiwen, Li, Minglong, Liu, Weibin, Liu, Xin, Zhao, Qian, Lisby, Michael, Wang, Jing, Fang, Jiao, Lin, Yun, Xie, Qing, Liu, Zhen, He, Jie, Xu, Huatai, Huang, Wei, Mulder, Jan, Yang, Huanming, Sun, Yangang, Uhlen, Mathias, Poo, Muming, Wang, Jian, Yao, Jianhua, Wei, Wu, Li, Yuxiang, Shen, Zhiming, Liu, Longqi, Liu, Zhiyong, Xu, Xun, Li, Chengyu·2023·Cell
DOI 10.1016/j.cell.2023.06.009

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Abstract

Elucidating the cellular organization of the cerebral cortex is critical for understanding brain structure and function. Using large-scale single-nucleus RNA sequencing and spatial transcriptomic analysis of 143 macaque cortical regions, we obtained a comprehensive atlas of 264 transcriptome-defined cortical cell types and mapped their spatial distribution across the entire cortex. We characterized the cortical layer and region preferences of glutamatergic, GABAergic, and non-neuronal cell types, as well as regional differences in cell-type composition and neighborhood complexity. Notably, we discovered a relationship between the regional distribution of various cell types and the region's hierarchical level in the visual and somatosensory systems. Cross-species comparison of transcriptomic data from human, macaque, and mouse cortices further revealed primate-specific cell types that are enriched in layer 4, with their marker genes expressed in a region-dependent manner. Our data provide a cellular and molecular basis for understanding the evolution, development, aging, and pathogenesis of the primate brain.

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  1. Yuste, 2020, A community-based transcriptomics classification and nomenclature of neocortical cell types, Nat. Neurosci., 23, 1456, 10.1038/s41593-020-0685-8 · DOI · Paper page

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Authors
Chen, A., Sun, Y., Lei, Y., Li, C., Liao, S., Meng, J., Bai, Y., Liu, Z., Liang, Z., Zhu, Z., Yuan, N., Yang, H., Wu, Z., Lin, F., Wang, K., Li, M., Zhang, S., Yang, M., Fei, T., Zhuang, Z., Huang, Y., Zhang, Y., Xu, Y., Cui, L., Zhang, R., Han, L., Sun, X., Chen, B., Li, W., Huangfu, B., Ma, K., Ma, J., Li, Z., Lin, Y., Wang, H., Zhong, Y., Zhang, H., Yu, Q., Wang, Y., Liu, X., Peng, J., Liu, C., Chen, W., Pan, W., An, Y., Xia, S., Lu, Y., Wang, M., Song, X., Liu, S., Wang, Z., Gong, C., Huang, X., Yuan, Y., Zhao, Y., Chai, Q., Tan, X., Liu, J., Zheng, M., Li, S., Huang, Y., Hong, Y., Huang, Z., Li, M., Jin, M., Li, Y., Zhang, H., Sun, S., Gao, L., Bai, Y., Cheng, M., Hu, G., Liu, S., Wang, B., Xiang, B., Li, S., Li, H., Chen, M., Wang, S., Li, M., Liu, W., Liu, X., Zhao, Q., Lisby, M., Wang, J., Fang, J., Lin, Y., Xie, Q., Liu, Z., He, J., Xu, H., Huang, W., Mulder, J., Yang, H., Sun, Y., Uhlen, M., Poo, M., Wang, J., Yao, J., Wei, W., Li, Y., Shen, Z., Liu, L., Liu, Z., Xu, X., & Li, C.
Affiliations
  • BGI Group (China) (CN)
  • Center for Excellence in Brain Science and Intelligence Technology (CN)
  • Tencent (China) (CN)
  • Shanghai Institute of Nutrition and Health (CN)
  • China National GeneBank (CN)
  • University of Copenhagen (DK)
  • Science for Life Laboratory (SE)
  • Chinese Academy of Sciences (CN)
Corresponding author
  • Sun, Yidi
  • Yao, Jianhua
  • Li, Yuxiang
  • Shen, Zhiming
  • Liu, Longqi
  • Liu, Zhiyong
  • Xu, Xun
  • Li, Chengyu
ORCID
Venue
Cell
Publisher
Elsevier BV
Published
2023-08
Volume
186
Issue
17
Pages
3726-3743.e24
ISSN
0092-8674 (ISSN-L)
DOI
10.1016/j.cell.2023.06.009
OpenAlex
W4384071384
Cited by
232
References
122
Citations by year
2026: 57 · 2025: 81 · 2024: 65 · 2023: 26
FWCI
20.41
Type
journal article
Language
en
Open access
Licence
Locations
  • Cell (publishedVersion, cc-by)
  • bioRxiv (Cold Spring Harbor Laboratory) (acceptedVersion, cc-by-nc-nd)
  • PubMed (publishedVersion)
  • Research at the University of Copenhagen (University of Copenhagen) (publishedVersion, cc-by)
Funders
  • National Natural Science Foundation of China (2018SHZDZX05, 31827803, 31900466)
  • Chinese Academy of Sciences (153D31KYSB20170059, 2018SHZDZX05, XDB32010100)
  • Shenzhen Fundamental Research Program
Topics
  • Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Single-cell and spatial transcriptomics
  • Life Sciences › Neuroscience › Cellular and Molecular Neuroscience › Neuroscience and Neuropharmacology Research
  • Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Genomics and Chromatin Dynamics
Keywords
macaque cortex, cortical cell types, single-nucleus RNA sequencing, spatial transcriptomics, cell type atlas, cortical layers, cortical regions, glutamatergic neurons, GABAergic neurons, non-neuronal cells, layer 4, cross-species comparison, primate brain evolution
MeSH terms
Animals, Cerebral Cortex, Humans, Macaca, Mice, Single-Cell Analysis, Transcriptome

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