Zhang, Kun

SARS-CoV-2 Receptor ACE2 Is an Interferon-Stimulated Gene in Human Airway Epithelial Cells and Is Detected in Specific Cell Subsets across Tissues

Ziegler, C. G. K., Allon, S. J., Nyquist, S. K., Mbano, I. M., Miao, V. N., Tzouanas, C. N., Cao, Y., Yousif, A. S., Bals, J., Hauser, B. M., et al. (2020) · Cell

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Somatic coding mutations in human induced pluripotent stem cells

Gore, A., Li, Z., Fung, H.-L., Young, J. E., Agarwal, S., Antosiewicz-Bourget, J., Canto, I., Giorgetti, A., Israel, M. A., Kiskinis, E., et al. (2011) · Nature

Pluripotent Stem Cells ResearchCRISPR and Genetic Engineering

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In vivo genome editing via CRISPR/Cas9 mediated homology-independent targeted integration

Suzuki, K., Tsunekawa, Y., Hernandez-Benitez, R., Wu, J., Zhu, J., Kim, E. J., Hatanaka, F., Yamamoto, M., Araoka, T., Li, Z., et al. (2016) · Nature

CRISPR and Genetic EngineeringRNA regulation and disease

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Integrative single-cell analysis of transcriptional and epigenetic states in the human adult brain

Lake, B. B., Chen, S., Sos, B. C., Fan, J., Kaeser, G. E., Yung, Y. C., Duong, T. E., Gao, D., Chun, J., Kharchenko, P. V., et al. (2018) · Nature Biotechnology

Single-cell and spatial transcriptomicsGenomics and Chromatin Dynamics

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Neuronal subtypes and diversity revealed by single-nucleus RNA sequencing of the human brain

Lake, B. B., Ai, R., Kaeser, G. E., Salathia, N. S., Yung, Y. C., Liu, R., Wildberg, A., Gao, D., Fung, H.-L., Chen, S., et al. (2016) · Science

Single-cell and spatial transcriptomicsGenomics and Phylogenetic Studies

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Comparative cellular analysis of motor cortex in human, marmoset and mouse

Bakken, T. E., Jorstad, N. L., Hu, Q., Lake, B. B., Tian, W., Kalmbach, B. E., Crow, M., Hodge, R. D., Krienen, F. M., Sorensen, S. A., et al. (2021) · Nature

Single-cell and spatial transcriptomicsNeuroscience and Neuropharmacology Research

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High-throughput sequencing of the transcriptome and chromatin accessibility in the same cell

Chen, S., Lake, B. B., & Zhang, K. (2019) · Nature Biotechnology

Single-cell and spatial transcriptomicsGenomics and Chromatin Dynamics

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Evolution of cellular diversity in primary motor cortex of human, marmoset monkey, and mouse

Bakken, T. E., Jorstad, N. L., Hu, Q., Lake, B. B., Tian, W., Kalmbach, B. E., Crow, M., Hodge, R. D., Krienen, F. M., Sorensen, S. A., et al. (2020) · Nature

Single-cell and spatial transcriptomicsNeuroscience and Neuropharmacology Research

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Neuronal activity modifies the DNA methylation landscape in the adult brain

Guo, J. U., Ma, D. K., Mo, H., Ball, M. P., Jang, M.-H., Bonaguidi, M. A., Balazer, J. A., Eaves, H. L., Xie, B., Ford, E., et al. (2011) · Nature Neuroscience

Epigenetics and DNA MethylationNeurogenesis and neuroplasticity mechanisms

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Recapitulation of premature ageing with iPSCs from Hutchinson-Gilford progeria syndrome

Liu, G.-H., Barkho, B. Z., Ruiz, S., Diep, D., Qu, J., Yang, S.-L., Panopoulos, A. D., Suzuki, K., Kurian, L., Walsh, C., et al. (2011) · Nature

Nuclear Structure and FunctionPluripotent Stem Cells Research

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Whole-Genome Sequencing in Autism Identifies Hot Spots for De Novo Germline Mutation

Michaelson, J. J., Shi, Y., Gujral, M., Zheng, H., Malhotra, D., Jin, X., Jian, M., Liu, G., Greer, D., Bhandari, A., et al. (2012) · Cell

Autism Spectrum Disorder ResearchGenomic variations and chromosomal abnormalities

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Fluorescent in situ sequencing (FISSEQ) of RNA for gene expression profiling in intact cells and tissues

Lee, J. H., Daugharthy, E. R., Scheiman, J., Kalhor, R., Ferrante, T. C., Terry, R., Turczyk, B. M., Yang, J. L., Lee, H. S., Aach, J., et al. (2015) · Nature Protocols

Single-cell and spatial transcriptomicsMolecular Biology Techniques and Applications

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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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Genome-wide Analysis Reveals TET- and TDG-Dependent 5-Methylcytosine Oxidation Dynamics

Shen, L., Wu, H., Diep, D., Yamaguchi, S., D’Alessio, A. C., Fung, H.-L., Zhang, K., & Zhang, Y. (2013) · Cell

Epigenetics and DNA MethylationGenomics and Chromatin Dynamics

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Allele-specific methylation is prevalent and is contributed by CpG-SNPs in the human genome

Shoemaker, R., Deng, J., Wang, W., & Zhang, K. (2010) · Genome Research

Epigenetics and DNA MethylationGenetic Syndromes and Imprinting

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Whole-genome sequencing analysis reveals high specificity of CRISPR/Cas9 and TALEN-based genome editing in human iPSCs

Smith, C., Gore, A., Yan, W., Abalde-Atristain, L., Li, Z., He, C., Wang, Y., Brodsky, R. A., Zhang, K., Cheng, L., et al. (2014) · Cell stem cell

CRISPR and Genetic EngineeringPluripotent Stem Cells Research

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Single-nucleus analysis of accessible chromatin in developing mouse forebrain reveals cell-type-specific transcriptional regulation

Preissl, S., Fang, R., Huang, H., Zhao, Y., Raviram, R., Gorkin, D. U., Zhang, Y., Sos, B. C., Afzal, V., Dickel, D. E., et al. (2018) · Nature Neuroscience

Single-cell and spatial transcriptomicsGenomics and Chromatin Dynamics

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A comparative strategy for single-nucleus and single-cell transcriptomes confirms accuracy in predicted cell-type expression from nuclear RNA

Lake, B. B., Codeluppi, S., Yung, Y. C., Gao, D., Chun, J., Kharchenko, P. V., Linnarsson, S., & Zhang, K. (2017) · Scientific Reports

Single-cell and spatial transcriptomicsGenomics and Phylogenetic Studies

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Massively parallel polymerase cloning and genome sequencing of single cells using nanoliter microwells

Gole, J., Gore, A., Richards, A., Chiu, Y.-J., Fung, H.-L., Bushman, D., Chiang, H.-I., Chun, J., Lo, Y.-H., & Zhang, K. (2013) · Nature Biotechnology

Genomics and Phylogenetic StudiesSingle-cell and spatial transcriptomics

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Temporal analyses of postnatal liver development and maturation by single-cell transcriptomics

Liang, Y., Kaneko, K., Xin, B., Lee, J., Sun, X., Zhang, K., & Feng, G.-S. (2022) · Developmental Cell

Single-cell and spatial transcriptomicsLiver physiology and pathology

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Excessive astrocyte-derived neurotrophin-3 contributes to the abnormal neuronal dendritic development in a mouse model of fragile X syndrome.

Yang, Q., Feng, B., Zhang, K., Guo, Y.-Y., Liu, S.-B., Wu, Y.-M., Li, X.-Q., & Zhao, M.-G. (2012) · PLoS Genetics

Genetics and Neurodevelopmental DisordersNeuroscience and Neuropharmacology Research

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Single-cell transcriptomics reveals opposing roles of Shp2 in Myc-driven liver tumor cells and microenvironment

Chen, W. S., Liang, Y., Zong, M., Liu, J. J., Kaneko, K., Hanley, K. L., Zhang, K., & Feng, G.-S. (2021) · Cell Reports

Protein Tyrosine PhosphatasesHepatocellular Carcinoma Treatment and Prognosis

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