110 Matching Annotations
  1. Aug 2025
  2. www.sciencedirect.com www.sciencedirect.com
    A consensus definition for deep layer 6 excitatory neurons in mouse somatosensory, visual, and motor cortex
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    sciencedirect.com/science/article/pii/S2211124725009386
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    Spatial dissimilarity analysis in single-cell transcriptomics
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    sciencedirect.com/science/article/pii/S2667237525001778
  4. dx.doi.org dx.doi.org
    scDCT: a conditional diffusion-based deep learning model for high-fidelity single-cell cross-modality translation
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    dx.doi.org/10.1093/bib/bbaf400
  5. Jul 2025
  6. pmc.ncbi.nlm.nih.gov pmc.ncbi.nlm.nih.gov
    Quantification of transcript isoforms at the single-cell level using SCALPEL
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    pmc.ncbi.nlm.nih.gov/articles/PMC12246054/
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    Human CLOCK enhances neocortical function
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    nature.com/articles/s41593-025-01993-4
  8. www.biorxiv.org www.biorxiv.org
    CellScope: High-Performance Cell Atlas Workflow with Tree-Structured Representation
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    biorxiv.org/content/10.1101/2025.02.15.638400v1
  9. Jun 2025
  10. www.cell.com www.cell.com
    Exploring brain circuits, one cell type—or more— at a time
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    cell.com/neuron/abstract/S0896-6273(25)00348-4
  11. Mar 2025
  12. 52.53.155.43 52.53.155.43
    1-s2.0-S2589004225003888-main-html.html
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  13. Dec 2024
  14. pmc.ncbi.nlm.nih.gov pmc.ncbi.nlm.nih.gov
    A consensus definition for deep layer 6 excitatory neurons in mouse neocortex
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    pmc.ncbi.nlm.nih.gov/articles/PMC11580952/
  15. Sep 2024
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    Areal specializations in the morpho-electric and transcriptomic properties of primate layer 5 extratelencephalic projection neurons
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    sciencedirect.com/science/article/pii/S2211124724010696
  17. Aug 2024
  18. www.nature.com www.nature.com
    Isoform cell-type specificity in the mouse primary motor cortex
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    nature.com/articles/s41586-021-03969-3
  19. elifesciences.org elifesciences.org
    Single-cell and single-nucleus RNA-seq uncovers shared and distinct axes of variation in dorsal LGN neurons in mice, non-human primates, and humans
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    elifesciences.org/articles/64875
  20. www.jneurosci.org www.jneurosci.org
    Cell type-specific oxidative stress genomic signatures in the globus pallidus of dopamine depleted mice
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    jneurosci.org/content/40/50/9772
  21. journals.biologists.com journals.biologists.com
    scTOP: physics-inspired order parameters for cellular identification and visualization
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    journals.biologists.com/dev/article/150/21/dev201873/334525/scTOP-physics-inspired-order-parameters-for
  22. academic.oup.com academic.oup.com
    Genetic Insights of Schizophrenia via Single Cell RNA-Sequencing Analyses
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    academic.oup.com/schizophreniabulletin/article/49/4/914/7048714
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    Transcriptional networks of transient cell states during human prefrontal cortex development
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    frontiersin.org/articles/10.3389/fnmol.2023.1126438
  24. May 2024
  25. www.biorxiv.org www.biorxiv.org
    Concerted neuron-astrocyte gene expression declines in aging and schizophrenia
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    biorxiv.org/content/10.1101/2024.01.07.574148v1
  26. Apr 2024
  27. www.ncbi.nlm.nih.gov www.ncbi.nlm.nih.gov
    scButterfly: a versatile single-cell cross-modality translation method via dual-aligned variational autoencoders
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    ncbi.nlm.nih.gov/pmc/articles/PMC10998864/
  28. Mar 2024
  29. www.nature.com www.nature.com
    Single-cell epigenomics reveals mechanisms of human cortical development
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    nature.com/articles/s41586-021-03209-8
  30. Feb 2024
  31. www.biorxiv.org www.biorxiv.org
    Cell type-specific enrichment of somatic aneuploidy in the mammalian brain
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    biorxiv.org/content/10.1101/2023.12.18.572285v1
  32. Jan 2024
  33. www.biorxiv.org www.biorxiv.org
    Cell type-specific enrichment of somatic aneuploidy in the mammalian brain
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    biorxiv.org/content/10.1101/2023.12.18.572285v1
  34. www.biorxiv.org www.biorxiv.org
    Transcriptomic cytoarchitecture reveals principles of human neocortex organization
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    biorxiv.org/content/10.1101/2022.11.06.515349v1
  35. www.science.org www.science.org
    Morphoelectric and transcriptomic divergence of the layer 1 interneuron repertoire in human versus mouse neocortex
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    science.org/doi/10.1126/science.adf0805
  36. www.science.org www.science.org
    Transcriptomic diversity of cell types across the adult human brain
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    science.org/doi/10.1126/science.add7046
  37. Dec 2023
  38. www.nature.com www.nature.com
    Single-cell analysis of chromatin accessibility in the adult mouse brain
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    nature.com/articles/s41586-023-06824-9
  39. www.nature.com www.nature.com
    The molecular cytoarchitecture of the adult mouse brain
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    nature.com/articles/s41586-023-06818-7
  40. www.ncbi.nlm.nih.gov www.ncbi.nlm.nih.gov
    Integrative single-nucleus multi-omics analysis prioritizes candidate cis and trans regulatory networks and their target genes in Alzheimer’s disease brains
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    ncbi.nlm.nih.gov/pmc/articles/PMC10546724/
  41. www.nature.com www.nature.com
    Molecular features driving cellular complexity of human brain evolution
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    nature.com/articles/s41586-023-06338-4
  42. www.science.org www.science.org
    Molecular programs of regional specification and neural stem cell fate progression in macaque telencephalon
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    science.org/doi/10.1126/science.adf3786
  43. www.ncbi.nlm.nih.gov www.ncbi.nlm.nih.gov
    Droplet-based single-cell joint profiling of histone modifications and transcriptomes
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    ncbi.nlm.nih.gov/pmc/articles/PMC10584685/
  44. www.science.org www.science.org
    Transcriptomic cytoarchitecture reveals principles of human neocortex organization
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    science.org/doi/10.1126/science.adf6812
  45. www.science.org www.science.org
    A single-cell multi-omic atlas spanning the adult rhesus macaque brain
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    science.org/doi/10.1126/sciadv.adh1914
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    Single-cell genomics reveals region-specific developmental trajectories underlying neuronal diversity in the human hypothalamus
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    science.org/doi/10.1126/sciadv.adf6251
  47. www.ncbi.nlm.nih.gov www.ncbi.nlm.nih.gov
    Brain proteome profiling implicates the complement and coagulation cascade in multiple system atrophy brain pathology
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    ncbi.nlm.nih.gov/pmc/articles/PMC9164190/
  48. www.biorxiv.org www.biorxiv.org
    A marmoset brain cell census reveals influence of developmental origin and functional class on neuronal identity
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    biorxiv.org/content/10.1101/2022.10.18.512442v2
  49. www.ncbi.nlm.nih.gov www.ncbi.nlm.nih.gov
    A high-resolution transcriptomic and spatial atlas of cell types in the whole mouse brain
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    ncbi.nlm.nih.gov/pmc/articles/PMC10081189/
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    Identification of brain cell types underlying genetic association with word reading and correlated traits
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    nature.com/articles/s41380-023-01970-y
  51. arxiv.org arxiv.org
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    arxiv.org/pdf/2303.02498.pdf
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    A molecularly defined and spatially resolved cell atlas of the whole mouse brain
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    biorxiv.org/content/10.1101/2023.03.06.531348v1
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    The cell type composition of the adult mouse brain revealed by single cell and spatial genomics
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    biorxiv.org/content/10.1101/2023.03.06.531307v2
  54. www.mdpi.com www.mdpi.com
    Cultured Mesenchymal Cells from Nasal Turbinate as a Cellular Model of the Neurodevelopmental Component of Schizophrenia Etiology
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    mdpi.com/1422-0067/24/20/15339
  55. www.sciencedirect.com www.sciencedirect.com
    Generation of ventralized human thalamic organoids with thalamic reticular nucleus
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    sciencedirect.com/science/article/pii/S1934590923000784
  56. www.biorxiv.org www.biorxiv.org
    MANGEM: a web app for Multimodal Analysis of Neuronal Gene expression, Electrophysiology and Morphology
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    biorxiv.org/content/10.1101/2023.04.03.535322v1
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    Integrative single-nucleus multi-omics analysis prioritizes candidate cis and trans regulatory networks and their target genes in Alzheimer’s disease brains
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    biorxiv.org/content/10.1101/2023.05.12.540037v1
  58. www.nature.com www.nature.com
    Advances and prospects for the Human BioMolecular Atlas Program (HuBMAP)
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    nature.com/articles/s41556-023-01194-w
  59. www.biorxiv.org www.biorxiv.org
    Cell-type specific molecular signatures of aging revealed in a brain-wide transcriptomic cell-type atlas
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    biorxiv.org/content/10.1101/2023.07.26.550355v1
  60. link.springer.com link.springer.com
    On Complexity and Emergence: Linking the Hypotheses of Pharmacoresistance in Epilepsy
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    link.springer.com/chapter/10.1007/978-3-031-36526-3_4
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    Recovery of missing single-cell RNA-sequencing data with optimized transcriptomic references
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    nature.com/articles/s41592-023-02003-w
  62. www.biorxiv.org www.biorxiv.org
    Joint inference of discrete cell types and continuous type-specific variability in single-cell datasets with MMIDAS
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    biorxiv.org/content/10.1101/2023.10.02.560574v1
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    Sibling chimerism among microglia in marmosets
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    biorxiv.org/content/10.1101/2023.10.16.562516v1
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    Selective plasticity of fast and slow excitatory synapses on somatostatin interneurons in adult visual cortex
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    nature.com/articles/s41467-023-42968-y
  65. www.biorxiv.org www.biorxiv.org
    A Global Transcriptional Atlas of the Effect of Sleep Deprivation in the Mouse Frontal Cortex
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    biorxiv.org/content/10.1101/2023.11.28.569011v1
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    AKT Signaling Modulates Latent Viral Reservoir Viability in HIV-1-Infected Blood-Brain Barrier Pericytes
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    sciencedirect.com/science/article/pii/S0021925823025541
  67. dx.doi.org dx.doi.org
    Biallelic mutations in P4HTM cause syndromic obesity
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    dx.doi.org/10.2337/db22-1017
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    Early Alzheimer’s disease pathology in human cortex involves transient cell states
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    sciencedirect.com/science/article/pii/S0092867423008590
  69. link.springer.com link.springer.com
    Uniform quantification of single-nucleus ATAC-seq data with Paired-Insertion Counting (PIC) and a model-based insertion rate estimator
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    link.springer.com/article/10.1038/s41592-023-02103-7
  70. www.ncbi.nlm.nih.gov www.ncbi.nlm.nih.gov
    Comparative transcriptomics reveals human-specific cortical features
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    ncbi.nlm.nih.gov/pmc/articles/PMC10659116/
  71. Nov 2023
  72. www.science.org www.science.org
    Interindividual variation in human cortical cell type abundance and expression
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    science.org/doi/10.1126/science.adf2359
  73. www.ncbi.nlm.nih.gov www.ncbi.nlm.nih.gov
    Single-cell genomics reveals region-specific developmental trajectories underlying neuronal diversity in the human hypothalamus
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    ncbi.nlm.nih.gov/pmc/articles/PMC10631741/
  74. Oct 2023
  75. www.science.org www.science.org
    A marmoset brain cell census reveals regional specialization of cellular identities
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    science.org/doi/10.1126/sciadv.adk3986
  76. www.science.org www.science.org
    Comparative transcriptomics reveals human-specific cortical features
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    science.org/doi/10.1126/science.ade9516
  77. www.ncbi.nlm.nih.gov www.ncbi.nlm.nih.gov
    A single-cell multi-omic atlas spanning the adult rhesus macaque brain
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    ncbi.nlm.nih.gov/pmc/articles/PMC10569716/
  78. www.ncbi.nlm.nih.gov www.ncbi.nlm.nih.gov
    A marmoset brain cell census reveals regional specialization of cellular identities
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    ncbi.nlm.nih.gov/pmc/articles/PMC10569717/
  79. Sep 2023
  80. www.ncbi.nlm.nih.gov www.ncbi.nlm.nih.gov
    Comparative single-cell transcriptomic analysis of primate brains highlights human-specific regulatory evolution
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    ncbi.nlm.nih.gov/pmc/articles/PMC10627823/
  81. www.biorxiv.org www.biorxiv.org
    Brain-wide Correspondence Between Neuronal Epigenomics and Long-Distance Projections
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    biorxiv.org/content/10.1101/2023.05.01.538832v1
  82. Aug 2023
  83. www.ncbi.nlm.nih.gov www.ncbi.nlm.nih.gov
    Droplet-based single-cell joint profiling of histone modifications and transcriptomes
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    ncbi.nlm.nih.gov/pmc/articles/PMC10584685/
  84. Jul 2023
  85. www.sciencedirect.com www.sciencedirect.com
    Single-cell spatial transcriptome reveals cell-type organization in the macaque cortex
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    sciencedirect.com/science/article/pii/S0092867423006797
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    A guide to the BRAIN Initiative Cell Census Network data ecosystem
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  87. May 2023
  88. www.science.org www.science.org
    Dense functional and molecular readout of a circuit hub in sensory cortex
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    science.org/doi/10.1126/science.abl5981
  89. Feb 2023
  90. www.biorxiv.org www.biorxiv.org
    The BRAIN Initiative Cell Census Network Data Ecosystem: A User’s Guide
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    biorxiv.org/content/10.1101/2022.10.26.513573v1
  91. Jul 2022
  92. onlinelibrary.wiley.com onlinelibrary.wiley.com
    Evolutionary innovations of human cerebral cortex viewed through the lens of high-throughput sequencing
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    onlinelibrary.wiley.com/doi/10.1002/dneu.22893
  93. Jun 2022
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    Cortical VIP+ Interneurons in the Upper and Deeper Layers Are Transcriptionally Distinct
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    link.springer.com/article/10.1007/s12031-022-02040-8
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    Brain proteome profiling implicates the complement and coagulation cascade in multiple system atrophy brain pathology
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    ncbi.nlm.nih.gov/pmc/articles/PMC9164190/
  96. May 2022
  97. www.ncbi.nlm.nih.gov www.ncbi.nlm.nih.gov
    Machine learning sequence prioritization for cell type-specific enhancer design
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    ncbi.nlm.nih.gov/pmc/articles/PMC9110026/
  98. www.biorxiv.org www.biorxiv.org
    An integrated transcriptomic and epigenomic atlas of mouse primary motor cortex cell types
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    biorxiv.org/content/10.1101/2020.02.29.970558v2
  99. Apr 2022
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    Single nucleus multi-omics identifies human cortical cell regulatory genome diversity
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    sciencedirect.com/science/article/pii/S2666979X22000271
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    Functional enhancer elements drive subclass-selective expression from mouse to primate neocortex
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  102. www.nature.com www.nature.com
    DNA methylation atlas of the mouse brain at single-cell resolution
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    nature.com/articles/s41586-020-03182-8
  103. www.nature.com www.nature.com
    Epigenomic diversity of cortical projection neurons in the mouse brain
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    nature.com/articles/s41586-021-03223-w
  104. elifesciences.org elifesciences.org
    Purkinje cell outputs selectively inhibit a subset of unipolar brush cells in the input layer of the cerebellar cortex
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    elifesciences.org/articles/68802
  105. www.nature.com www.nature.com
    Transcriptomic evidence that von Economo neurons are regionally specialized extratelencephalic-projecting excitatory neurons
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    nature.com/articles/s41467-020-14952-3
  106. www.nature.com www.nature.com
    Benchmarking atlas-level data integration in single-cell genomics
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    nature.com/articles/s41592-021-01336-8
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    A protocol to extract cell-type-specific signatures from differentially expressed genes in bulk-tissue RNA-seq
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    sciencedirect.com/science/article/pii/S2666166722000016
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    Cell-type-specific 3D epigenomes in the developing human cortex
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    nature.com/articles/s41586-020-2825-4
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    Consistent cross-modal identification of cortical neurons with coupled autoencoders
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    nature.com/articles/s43588-021-00030-1
  110. www.nature.com www.nature.com
    Scaling up reproducible research for single-cell transcriptomics using MetaNeighbor
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    nature.com/articles/s41596-021-00575-5
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    UINMF performs mosaic integration of single-cell multi-omic datasets using nonnegative matrix factorization
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    nature.com/articles/s41467-022-28431-4
  112. academic.oup.com academic.oup.com
    PsiNorm: a scalable normalization for single-cell RNA-seq data
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    academic.oup.com/bioinformatics/article/38/1/164/6367764
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    Distinct Transcriptomic Cell Types and Neural Circuits of the Subiculum and Prosubiculum along the Dorsal-Ventral Axis
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    sciencedirect.com/science/article/pii/S221112472030601X
  114. elifesciences.org elifesciences.org
    Robust and annotation-free analysis of alternative splicing across diverse cell types in mice
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    elifesciences.org/articles/73520
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    Enhancer viruses for combinatorial cell-subclass-specific labeling
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    sciencedirect.com/science/article/pii/S0896627321001598
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    Iterative single-cell multi-omic integration using online learning
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    nature.com/articles/s41587-021-00867-x
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    A taxonomy of transcriptomic cell types across the isocortex and hippocampal formation
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  118. www.nature.com www.nature.com
    A transcriptomic atlas of mouse cerebellar cortex comprehensively defines cell types
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  119. www.jneurosci.org www.jneurosci.org
    Cell type-specific oxidative stress genomic signatures in the globus pallidus of dopamine depleted mice
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  120. www.sciencedirect.com www.sciencedirect.com
    Atlas of Transcription Factor Binding Sites from ENCODE DNase Hypersensitivity Data across 27 Tissue Types
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    Integrated Morphoelectric and Transcriptomic Classification of Cortical GABAergic Cells
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    Farewell, Neuroinformatics!
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    link.springer.com/article/10.1007/s12021-021-09552-5
  123. www.sciencedirect.com www.sciencedirect.com
    Explorers of the cells: Toward cross-platform knowledge integration to evaluate neuronal function
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  124. Nov 2021
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    How many markers are needed to robustly determine a cell's type?
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  126. Oct 2021
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    A multimodal cell census and atlas of the mammalian primary motor cortex
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  128. www.nature.com www.nature.com
    An atlas of gene regulatory elements in adult mouse cerebrum
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  129. www.nature.com www.nature.com
    Comparative cellular analysis of motor cortex in human, marmoset and mouse
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  130. www.nature.com www.nature.com
    A transcriptomic and epigenomic cell atlas of the mouse primary motor cortex
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  131. Jul 2021
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    Conserved cell types with divergent features in human versus mouse cortex
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  133. Jun 2021
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    Phenotypic variation of transcriptomic cell types in mouse motor cortex
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    nature.com/articles/s41586-020-2907-3
  135. Mar 2021
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    Joint profiling of histone modifications and transcriptome in single cells from mouse brain
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    nature.com/articles/s41592-021-01060-3
  137. Feb 2021
  138. www.biorxiv.org www.biorxiv.org
    An Atlas of Gene Regulatory Elements in Adult Mouse Cerebrum
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  139. Sep 2020
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    Epigenetic modulation of AREL1 and increased HLA expression in brains of multiple system atrophy patients
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    link.springer.com/article/10.1186/s40478-020-00908-7