Zhuang, Xiaowei

Spatially resolved, highly multiplexed RNA profiling in single cells

Chen, K. H., Boettiger, A. N., Moffitt, J. R., Wang, S., & Zhuang, X. (2015) · Science

Single-cell and spatial transcriptomicsRNA Research and Splicing

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Super-resolution fluorescence microscopy

Huang, B., Bates, M., & Zhuang, X. (2009) · Annual Review of Biochemistry

Advanced Fluorescence Microscopy TechniquesCell Image Analysis Techniques

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Molecular, spatial, and functional single-cell profiling of the hypothalamic preoptic region

Moffitt, J. R., Bambah-Mukku, D., Eichhorn, S. W., Vaughn, E., Shekhar, K., Perez, J. D., Rubinstein, N. D., Hao, J., Regev, A., Dulac, C., et al. (2018) · Science

Single-cell and spatial transcriptomicsNeuroscience and Neuropharmacology Research

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A high-resolution transcriptomic and spatial atlas of cell types in the whole mouse brain

Yao, Z., van Velthoven, C. T. J., Kunst, M., Zhang, M., McMillen, D., Lee, C., Jung, W., Goldy, J., Abdelhak, A., Aitken, M., et al. (2023) · Nature

Single-cell and spatial transcriptomicsCell Image Analysis Techniques

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Super-resolution chromatin tracing reveals domains and cooperative interactions in single cells

Bintu, B., Mateo, L. J., Su, J.-H., Sinnott-Armstrong, N. A., Parker, M., Kinrot, S., Yamaya, K., Boettiger, A. N., & Zhuang, X. (2018) · Science

Genomics and Chromatin DynamicsAdvanced Fluorescence Microscopy Techniques

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Deep learning and alignment of spatially resolved single-cell transcriptomes with Tangram

Biancalani, T., Scalia, G., Buffoni, L., Avasthi, R., Lu, Z., Sanger, A., Tokcan, N., Vanderburg, C. R., Segerstolpe, Å., Zhang, M., et al. (2021) · Nature Methods

Single-cell and spatial transcriptomicsGenomics and Phylogenetic Studies

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Spatial transcriptome profiling by MERFISH reveals subcellular RNA compartmentalization and cell cycle-dependent gene expression

Xia, C., Fan, J., Emanuel, G., Hao, J., & Zhuang, X. (2019) · Proceedings of the National Academy of Sciences

Single-cell and spatial transcriptomicsRNA Research and Splicing

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Genome-Scale Imaging of the 3D Organization and Transcriptional Activity of Chromatin

Su, J.-H., Zheng, P., Kinrot, S. S., Bintu, B., & Zhuang, X. (2020) · Cell

Genomics and Chromatin DynamicsAdvanced Fluorescence Microscopy Techniques

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A multimodal cell census and atlas of the mammalian primary motor cortex

BRAIN Initiative Cell Census Network (BICCN), BRAIN Initiative Cell Census Network (BICCN) Corresponding authors, Callaway, E. M., Dong, H.-W., Ecker, J. R., Hawrylycz, M. J., Huang, Z. J., Lein, E. S., Ngai, J., Osten, P., et al. (2021) · Nature

Single-cell and spatial transcriptomicsGenomics and Chromatin Dynamics

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Super-resolution fluorescence imaging of organelles in live cells with photoswitchable membrane probes

Shim, S.-H., Xia, C., Zhong, G., Babcock, H. P., Vaughan, J. C., Huang, B., Wang, X., Xu, C., Bi, G.-Q., & Zhuang, X. (2012) · Proceedings of the National Academy of Sciences

Advanced Fluorescence Microscopy TechniquesMolecular Sensors and Ion Detection

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Spatially resolved cell atlas of the mouse primary motor cortex by MERFISH

Zhang, M., Eichhorn, S. W., Zingg, B., Yao, Z., Cotter, K., Zeng, H., Dong, H., & Zhuang, X. (2021) · Nature

Single-cell and spatial transcriptomicsCell Image Analysis Techniques

Cited by 498

Super-Resolution Fluorescence Imaging of Telomeres Reveals TRF2-Dependent T-loop Formation

Doksani, Y., Wu, J. Y., de Lange, T., & Zhuang, X. (2013) · Cell

Telomeres, Telomerase, and SenescenceDNA Repair Mechanisms

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Molecular and spatial signatures of mouse brain aging at single-cell resolution

Allen, W. E., Blosser, T. R., Sullivan, Z. A., Dulac, C., & Zhuang, X. (2023) · Cell

Single-cell and spatial transcriptomicsNeuroinflammation and Neurodegeneration Mechanisms

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Single-molecule super-resolution imaging of chromosomes and in situ haplotype visualization using Oligopaint FISH probes

Beliveau, B. J., Boettiger, A. N., Avendaño, M. S., Jungmann, R., McCole, R. B., Joyce, E. F., Kim-Kiselak, C., Bantignies, F., Fonseka, C. Y., Erceg, J., et al. (2015) · Nature Communications

Advanced Fluorescence Microscopy TechniquesGenomic variations and chromosomal abnormalities

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High-performance multiplexed fluorescence in situ hybridization in culture and tissue with matrix imprinting and clearing

Moffitt, J. R., Hao, J., Bambah-Mukku, D., Lu, T., Dulac, C., & Zhuang, X. (2016) · Proceedings of the National Academy of Sciences

Single-cell and spatial transcriptomicsAdvanced Fluorescence Microscopy Techniques

Cited by 308

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

Fang, R., Xia, C., Close, J. L., Zhang, M., He, J., Huang, Z., Halpern, A. R., Long, B., Miller, J. A., Lein, E. S., et al. (2022) · Science

Single-cell and spatial transcriptomicsNeurogenesis and neuroplasticity mechanisms

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Spatially resolved single-cell genomics and transcriptomics by imaging

Zhuang, X. (2021) · Nature Methods

Single-cell and spatial transcriptomicsAdvanced Fluorescence Microscopy Techniques

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Spatially resolved epigenomic profiling of single cells in complex tissues

Lu, T., Ang, C. E., & Zhuang, X. (2022) · Cell

Single-cell and spatial transcriptomicsGenomics and Chromatin Dynamics

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Decoding molecular and cellular heterogeneity of mouse nucleus accumbens

Chen, R., Blosser, T. R., Djekidel, M. N., Hao, J., Bhattacherjee, A., Chen, W., Tuesta, L. M., Zhuang, X., & Zhang, Y. (2021) · Nature Neuroscience

Single-cell and spatial transcriptomicsNeuroscience and Neuropharmacology Research

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CTCF mediates dosage- and sequence-context-dependent transcriptional insulation by forming local chromatin domains

Huang, H., Zhu, Q., Jussila, A., Han, Y., Bintu, B., Kern, C., Conte, M., Zhang, Y., Bianco, S., Chiariello, A. M., et al. (2021) · Nature Genetics

Genomics and Chromatin DynamicsChromatin Remodeling and Cancer

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Structural maturation of cortical perineuronal nets and their perforating synapses revealed by superresolution imaging

Sigal, Y. M., Bae, H., Bogart, L. J., Hensch, T. K., & Zhuang, X. (2019) · Proceedings of the National Academy of Sciences

Neuroscience and Neuropharmacology ResearchGenetics and Neurodevelopmental Disorders

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Imaging-based pooled CRISPR screening reveals regulators of lncRNA localization

Wang, C., Lu, T., Emanuel, G., Babcock, H. P., & Zhuang, X. (2019) · Proceedings of the National Academy of Sciences

CRISPR and Genetic EngineeringCancer-related molecular mechanisms research

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Molecular, spatial and projection diversity of neurons in primary motor cortex revealed by in situ single-cell transcriptomics

Zhang, M., Eichhorn, S. W., Zingg, B., Yao, Z., Zeng, H., Dong, H., & Zhuang, X. (2020) · bioRxiv (Cold Spring Harbor Laboratory)

Single-cell and spatial transcriptomicsNeuroscience and Neuropharmacology Research

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