Lein, Ed S.

Using single nuclei for RNA-seq to capture the transcriptome of postmortem neurons

Krishnaswami, S. R., Grindberg, R. V., Novotny, M., Venepally, P., Lacar, B., Bhutani, K., Linker, S. B., Pham, S., Erwin, J. A., Miller, J. A., et al. (2016) · Nature Protocols

Single-cell and spatial transcriptomicsGenomics and Phylogenetic Studies

Cited by 445

Large-Scale Cellular-Resolution Gene Profiling in Human Neocortex Reveals Species-Specific Molecular Signatures

Zeng, H., Shen, E. H., Hohmann, J. G., Oh, S. W., Bernard, A., Royall, J. J., Glattfelder, K. J., Sunkin, S. M., Morris, J. A., Guillozet-Bongaarts, A. L., et al. (2012) · Cell

Single-cell and spatial transcriptomicsNeuroscience and Neuropharmacology Research

Cited by 426

Integrated multimodal cell atlas of Alzheimer’s disease

Gabitto, M. I., Travaglini, K. J., Rachleff, V. M., Kaplan, E. S., Long, B., Ariza, J., Ding, Y., Mahoney, J. T., Dee, N., Goldy, J., et al. (2023) · Nature Neuroscience

Alzheimer's disease research and treatmentsSingle-cell and spatial transcriptomics

Cited by 425

Genomic anatomy of the hippocampus

Thompson, C. L., Pathak, S. D., Jeromin, A., Ng, L. L., MacPherson, C. R., Mortrud, M. T., Cusick, A., Riley, Z. L., Sunkin, S. M., Bernard, A., et al. (2008) · Neuron

Memory and Neural MechanismsNeuroscience and Neuropharmacology Research

Cited by 403

Integrated multimodal cell atlas of Alzheimer’s disease

Gabitto, M. I., Travaglini, K. J., Rachleff, V. M., Kaplan, E. S., Long, B., Ariza, J., Ding, Y., Mahoney, J. T., Dee, N., Goldy, J., et al. (2024) · Nature Neuroscience

Alzheimer's disease research and treatmentsSingle-cell and spatial transcriptomics

Cited by 397

The promise of spatial transcriptomics for neuroscience in the era of molecular cell typing

Lein, E., Borm, L. E., & Linnarsson, S. (2017) · Science

Single-cell and spatial transcriptomicsCell Image Analysis Techniques

Cited by 383

Local connectivity and synaptic dynamics in mouse and human neocortex

Campagnola, L., Seeman, S. C., Chartrand, T., Kim, L., Hoggarth, A., Gamlin, C., Ito, S., Trinh, J., Davoudian, P., Radaelli, C., et al. (2022) · Science

Neuroscience and Neuropharmacology ResearchNeural dynamics and brain function

Cited by 363

Neurodevelopmental disease genes implicated by de novo mutation and copy number variation morbidity

Coe, B. P., Stessman, H. A. F., Sulovari, A., Geisheker, M. R., Bakken, T. E., Lake, A. M., Dougherty, J. D., Lein, E. S., Hormozdiari, F., Bernier, R. A., et al. (2019) · Nature Genetics

Genetics and Neurodevelopmental DisordersGenomic variations and chromosomal abnormalities

Cited by 330

Transcriptomic and morphophysiological evidence for a specialized human cortical GABAergic cell type

Boldog, E., Bakken, T. E., Hodge, R. D., Novotny, M., Aevermann, B. D., Baka, J., Bordé, S., Close, J. L., Diez-Fuertes, F., Ding, S.-L., et al. (2018) · Nature Neuroscience

Neuroscience and Neuropharmacology ResearchSingle-cell and spatial transcriptomics

Cited by 291

Human neocortical expansion involves glutamatergic neuron diversification

Berg, J., Sorensen, S. A., Ting, J. T., Miller, J. A., Chartrand, T., Buchin, A., Bakken, T. E., Budzillo, A., Dee, N., Ding, S.-L., et al. (2021) · Nature

Single-cell and spatial transcriptomicsNeuroscience and Neuropharmacology Research

Cited by 285

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

Cited by 277

Molecular and cellular reorganization of neural circuits in the human lineage

Sousa, A. M. M., Zhu, Y., Raghanti, M. A., Kitchen, R. R., Onorati, M., Tebbenkamp, A. T. N., Stutz, B., Meyer, K. A., Li, M., Kawasawa, Y. I., et al. (2017) · Science

Single-cell and spatial transcriptomicsNeurogenesis and neuroplasticity mechanisms

Cited by 253

Transcriptional Architecture of the Primate Neocortex

Bernard, A., Lubbers, L. S., Tanis, K. Q., Luo, R., Podtelezhnikov, A. A., Finney, E. M., McWhorter, M. M. E., Serikawa, K., Lemon, T., Morgan, R., et al. (2012) · Neuron

Neurogenesis and neuroplasticity mechanismsSingle-cell and spatial transcriptomics

Cited by 224

Transcriptomic cytoarchitecture reveals principles of human neocortex organization

Jorstad, N. L., Close, J., Johansen, N., Yanny, A. M., Barkan, E. R., Travaglini, K. J., Bertagnolli, D., Campos, J., Casper, T., Crichton, K., et al. (2023) · Science

Single-cell and spatial transcriptomicsNeuroscience and Neuropharmacology Research

Cited by 209

Comparative transcriptomics reveals human-specific cortical features

Jorstad, N. L., Song, J. H. T., Exposito-Alonso, D., Suresh, H., Castro-Pacheco, N., Krienen, F. M., Yanny, A. M., Close, J., Gelfand, E., Long, B., et al. (2023) · Science

Single-cell and spatial transcriptomicsNeurogenesis and neuroplasticity mechanisms

Cited by 208

h-Channels Contribute to Divergent Intrinsic Membrane Properties of Supragranular Pyramidal Neurons in Human versus Mouse Cerebral Cortex

Kalmbach, B. E., Buchin, A., Long, B., Close, J., Nandi, A., Miller, J. A., Bakken, T. E., Hodge, R. D., Chong, P., de Frates, R., et al. (2018) · Neuron

Ion channel regulation and functionNeural dynamics and brain function

Cited by 203

Functional enhancer elements drive subclass-selective expression from mouse to primate neocortex

Mich, J. K., Graybuck, L. T., Hess, E. E., Mahoney, J. T., Kojima, Y., Ding, Y., Somasundaram, S., Miller, J. A., Kalmbach, B. E., Radaelli, C., et al. (2021) · Cell Reports

Virus-based gene therapy researchRNA Interference and Gene Delivery

Cited by 193

Enhancer viruses for combinatorial cell-subclass-specific labeling

Graybuck, L. T., Daigle, T. L., Sedeño-Cortés, A. E., Walker, M., Kalmbach, B., Lenz, G. H., Morin, E., Nguyen, T. N., Garren, E., Bendrick, J. L., et al. (2021) · Neuron

Virus-based gene therapy researchSingle-cell and spatial transcriptomics

Cited by 187

Sparse recurrent excitatory connectivity in the microcircuit of the adult mouse and human cortex

Seeman, S. C., Campagnola, L., Davoudian, P. A., Hoggarth, A., Hage, T. A., Bosma-Moody, A., Baker, C. A., Lee, J. H., Mihalas, S., Teeter, C., et al. (2018) · eLife

Neuroscience and Neuropharmacology ResearchNeural dynamics and brain function

Cited by 183

A comparative atlas of single-cell chromatin accessibility in the human brain

Li, Y. E., Preissl, S., Miller, M., Johnson, N. D., Wang, Z., Jiao, H., Zhu, C., Wang, Z., Xie, Y., Poirion, O., et al. (2023) · Science

Genomics and Chromatin DynamicsSingle-cell and spatial transcriptomics

Cited by 173

Single-cell transcriptomic evidence for dense intracortical neuropeptide networks

Smith, S. J., Sümbül, U., Graybuck, L. T., Collman, F., Seshamani, S., Gala, R., Gliko, O., Elabbady, L., Miller, J. A., Bakken, T. E., et al. (2019) · eLife

Neuropeptides and Animal PhysiologyNeuroscience and Neuropharmacology Research

Cited by 156

Single-cell DNA methylation and 3D genome architecture in the human brain

Tian, W., Zhou, J., Bartlett, A., Zeng, Q., Liu, H., Castanon, R. G., Kenworthy, M., Altshul, J., Valadon, C., Aldridge, A., et al. (2023) · Science

Epigenetics and DNA MethylationSingle-cell and spatial transcriptomics

Cited by 154

Neuropathological and transcriptomic characteristics of the aged brain

Miller, J. A., Guillozet-Bongaarts, A., Gibbons, L. E., Postupna, N., Renz, A., Beller, A. E., Sunkin, S. M., Ng, L., Rose, S. E., Smith, K. A., et al. (2017) · eLife

Alzheimer's disease research and treatmentsDementia and Cognitive Impairment Research

Cited by 134

Correlated gene expression and target specificity demonstrate excitatory projection neuron diversity

Sorensen, S. A., Bernard, A., Menon, V., Royall, J. J., Glattfelder, K. J., Desta, T., Hirokawa, K., Mortrud, M., Miller, J. A., Zeng, H., et al. (2015) · Cerebral Cortex

Neuroscience and Neuropharmacology ResearchNeurogenesis and neuroplasticity mechanisms

Cited by 131