Conservation and divergence of cortical cell organization in human and mouse revealed by MERFISH

Fang, Rongxin, Xia, Chenglong, Close, Jennie L., Zhang, Meng, He, Jiang, Huang, Zhengkai, Halpern, Aaron R., Long, Brian +3 more·2022·Science

Cited by (275)

Items 101–200 of 275

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  6. Recent advances in understanding neuronal diversity and neural circuit complexity across different brain regions using single-cell sequencing
    Yu Xing, Chunfang Zan, Lu Liu · 2023 · Frontiers in Neural Circuits
  7. Three-dimensional single-cell transcriptome imaging of thick tissues
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  13. Transcriptomic landscape of mammalian ventral pallidum at single-cell resolution
    Lite Yang, Lisa Z. Fang, Michelle Lynch, Chang S Xu, Hannah Hahm, Yufen Zhang, Monique R. Heitmeier, Vincent D. Costa, Vijay K. Samineni, Meaghan C. Creed · 2024 · Science Advances
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    Shu Cui, Fan Guan, Xuetong Li, Xinmiao Long, Minghua Wu · 2025 · Biochimica et Biophysica Acta (BBA) - Reviews on Cancer
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  19. Spatial-Omics Methods and Applications
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    Theresa Bartels, David H. Rowitch, Omer Ali Bayraktar · 2024 · Cold Spring Harbor Perspectives in Biology
  26. Multiplexed spatial transcriptomics methods and the application of expansion microscopy
    Fortner, Andra, Bucur, Octavian · 2024 · Frontiers in Cell and Developmental Biology
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    Xiao Xiao, Le Yuan Zhang, Hongyu Zhao, Zuoheng Wang · 2025 · Nature Machine Intelligence
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  29. Transfer learning of multicellular organization via single-cell and spatial transcriptomics
    Yecheng Tan, Ai Wang, Zezhou Wang, Wei Lin, Yan Yan, Qing Nie, Jifan Shi · 2025 · PLoS Computational Biology
  30. The quest to map the mouse brain
    Diana Kwon · 2023 · Nature
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    Samuel J. Dienel, Kirsten Wade, Kenneth N. Fish, David A. Lewis · 2025 · Biological Psychiatry
  32. Spatial resolved transcriptomics: Computational insights into gene transcription across tissue and organ architecture in diverse applications
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    Chengming Zhang, Yiwen Yang, Yifeng Jiao, Qianqian Yang, Xin Guo, Jing Xu, Jiyang Li, Yuanyuan Zhou, Zhen Liu, Yushuai Wu et al. · 2025 · bioRxiv (Cold Spring Harbor Laboratory)
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    Limor Cohen, Aaron R. Halpern, Timothy R. Blosser, Z. Phil Che, Xingjie Pan, Xiaowei Zhuang · 2026 · Cell
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    Haixia Mao, Min Xu, Hui Wang, Yuankun Liu, Feng Wang, Qianqian Gao, Songyun Zhao, Lin Ma, Xiaoyun Hu, Xiaoxuan Zhang et al. · 2024 · Frontiers in Aging Neuroscience
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    Jeffrey B. Russ, Alexa C. Stone, Kayli Maney, Lauren C. Morris, Caroline Fiona Wright, Jillian H. Hurst, Jennifer L. Cohen · 2025 · Scientific Reports
  54. Three-dimensional single-cell transcriptome imaging of thick tissues
    Rongxin Fang, Aaron R. Halpern, Mohammed Mostafizur Rahman, Zhengkai Huang, Zhiyun Lei, Sebastian J Hell, Catherine G. Dulac, Xiaowei Zhuang · 2023 · eLife
  55. Comparative neuroimaging of sex differences in human and mouse brain anatomy
    Elisa Guma, Antoine Beauchamp, Siyuan Liu, E. Levitis, J. Ellegood, Linh Pham, R. Mars, A. Raznahan, J. Lerch · 2023 · bioRxiv
  56. Role of microbiota in pain: From bench to bedside
    Huiguang Ren, Bo Cao, Qixuan Xu, Ruiyang Zhao, Hanghang Li, Bo Wei · 2025 · iMetaOmics.
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    Raquel Moya, Xiaohan Wang, Richard W. Tsien, Matthew T. Maurano · 2025 · Proceedings of the National Academy of Sciences
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  65. Efficient coding in biophysically realistic excitatory-inhibitory spiking networks
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  66. Spatial omics representation and functional tissue module inference using graph Fourier transform
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  67. Comparative single cell epigenomic analysis of gene regulatory programs in the rodent and primate neocortex
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  68. SIMVI reveals intrinsic and spatial-induced states in spatial omics data
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  69. Diversity and Evolution of Human Cortical Progenitor Cell Types
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  70. Spatial and temporal profiling of the complement system uncovered novel functions of the alternative complement pathway in brain development
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  73. Spatial multi-omics technologies and applications in cancer
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  75. Pluripotent stem cells-based neural organoids for modelling human brain development and diseases
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  76. Spatial transcriptomics in epilepsy research: Early successes, opportunities, and challenges
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  78. Spatial atlas of the human brain vasculature reveals specialized cell ensembles
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  79. Spatial transcriptomics in the adult Drosophila brain and body
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  80. DSCT: a novel deep-learning framework for rapid and accurate spatial transcriptomic cell typing
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  81. Decoding human brain evolution: Insights from genomics
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  82. Shedding light on latent pathogenesis and pathophysiology of mental disorders: The potential of iPS cell technology
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  83. Human brain tissue cultures: a unique ex vivo model to unravel the pathogenesis of neurotropic arboviruses
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  84. STEM: A Method for Mapping Single-cell and Spatial Transcriptomics Data with Transfer Learning
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  85. Efficient coding in biophysically realistic excitatory-inhibitory spiking networks
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  86. Discovery of neuronal cell types by pairing whole cell reconstructions with RNA expression profiles
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  87. One-step induction of human GABAergic neurons promotes presynaptic development & synapse maturation
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  88. Segmentation Matters: Recognizing the Cell Segmentation Challenge in Spatial Transcriptomics
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  89. Single-cell Multiome Analysis of Chromatin State and Transcriptome in the Human Basal Ganglia
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  90. MERFISH 2.0, an ultra-sensitive single-cell spatial transcriptomics imaging chemistry across diverse tissue types
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  91. What’s so special about the human brain? A graphical guide
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  92. Glial changes and gene expression in Alzheimer's disease from snRNA-Seq and spatial transcriptomics
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  93. Boosting multiplexing capabilities for error-robust spatial transcriptomic methods using a set exchange approach
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