111 Matching Annotations
  1. Sep 2025
  2. www.sciencedirect.com www.sciencedirect.com
    Cell-type-specific enrichment of somatic aneuploidy in the mammalian brain
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    sciencedirect.com/science/article/pii/S0896627325005902
  3. Aug 2025
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    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
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    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
  7. Jul 2025
  8. 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
  10. 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
  11. Jun 2025
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    Exploring brain circuits, one cell type—or more— at a time
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    cell.com/neuron/abstract/S0896-6273(25)00348-4
  13. Mar 2025
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  15. Dec 2024
  16. 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/
  17. 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
  19. Aug 2024
  20. 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
  21. 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
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    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
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    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
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    Genetic Insights of Schizophrenia via Single Cell RNA-Sequencing Analyses
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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
  26. May 2024
  27. 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
  28. Apr 2024
  29. 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/
  30. Mar 2024
  31. 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
  32. Feb 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. Jan 2024
  35. www.biorxiv.org www.biorxiv.org
    Cell type-specific enrichment of somatic aneuploidy in the mammalian brain
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  36. 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
  37. 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
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    Transcriptomic diversity of cell types across the adult human brain
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  39. Dec 2023
  40. www.nature.com www.nature.com
    Single-cell analysis of chromatin accessibility in the adult mouse brain
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    The molecular cytoarchitecture of the adult mouse brain
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  42. 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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    Molecular features driving cellular complexity of human brain evolution
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    Molecular programs of regional specification and neural stem cell fate progression in macaque telencephalon
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    Droplet-based single-cell joint profiling of histone modifications and transcriptomes
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    Transcriptomic cytoarchitecture reveals principles of human neocortex organization
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    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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  49. 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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    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
  51. 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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    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
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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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    Cultured Mesenchymal Cells from Nasal Turbinate as a Cellular Model of the Neurodevelopmental Component of Schizophrenia Etiology
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    Generation of ventralized human thalamic organoids with thalamic reticular nucleus
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    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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    Advances and prospects for the Human BioMolecular Atlas Program (HuBMAP)
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    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
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    On Complexity and Emergence: Linking the Hypotheses of Pharmacoresistance in Epilepsy
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    Recovery of missing single-cell RNA-sequencing data with optimized transcriptomic references
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  64. 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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    Selective plasticity of fast and slow excitatory synapses on somatostatin interneurons in adult visual cortex
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    A Global Transcriptional Atlas of the Effect of Sleep Deprivation in the Mouse Frontal Cortex
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    AKT Signaling Modulates Latent Viral Reservoir Viability in HIV-1-Infected Blood-Brain Barrier Pericytes
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  69. 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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  71. 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
  72. www.ncbi.nlm.nih.gov www.ncbi.nlm.nih.gov
    Comparative transcriptomics reveals human-specific cortical features
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  73. Nov 2023
  74. 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
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    Single-cell genomics reveals region-specific developmental trajectories underlying neuronal diversity in the human hypothalamus
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  76. Oct 2023
  77. 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
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    Comparative transcriptomics reveals human-specific cortical features
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  79. 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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    A marmoset brain cell census reveals regional specialization of cellular identities
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  81. Sep 2023
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    Comparative single-cell transcriptomic analysis of primate brains highlights human-specific regulatory evolution
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    ncbi.nlm.nih.gov/pmc/articles/PMC10627823/
  83. 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
  84. Aug 2023
  85. 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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  86. Jul 2023
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    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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  89. May 2023
  90. 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
  91. Feb 2023
  92. 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
  93. Jul 2022
  94. 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
  95. Jun 2022
  96. link.springer.com link.springer.com
    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/
  98. May 2022
  99. 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/
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    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
  101. Apr 2022
  102. www.sciencedirect.com www.sciencedirect.com
    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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  104. 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
  105. 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
  106. 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
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    Transcriptomic evidence that von Economo neurons are regionally specialized extratelencephalic-projecting excitatory neurons
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    nature.com/articles/s41467-020-14952-3
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    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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    Cell-type-specific 3D epigenomes in the developing human cortex
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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
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    Scaling up reproducible research for single-cell transcriptomics using MetaNeighbor
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    nature.com/articles/s41596-021-00575-5
  113. www.nature.com www.nature.com
    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
  114. 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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  116. 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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    Iterative single-cell multi-omic integration using online learning
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    nature.com/articles/s41587-021-00867-x
  119. www.sciencedirect.com www.sciencedirect.com
    A taxonomy of transcriptomic cell types across the isocortex and hippocampal formation
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  120. www.nature.com www.nature.com
    A transcriptomic atlas of mouse cerebellar cortex comprehensively defines cell types
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  121. 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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  122. 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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    sciencedirect.com/science/article/pii/S2211124720310147
  123. www.sciencedirect.com www.sciencedirect.com
    Integrated Morphoelectric and Transcriptomic Classification of Cortical GABAergic Cells
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  124. link.springer.com link.springer.com
    Farewell, Neuroinformatics!
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    link.springer.com/article/10.1007/s12021-021-09552-5
  125. www.sciencedirect.com www.sciencedirect.com
    Explorers of the cells: Toward cross-platform knowledge integration to evaluate neuronal function
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  126. Nov 2021
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    How many markers are needed to robustly determine a cell's type?
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  128. Oct 2021
  129. www.nature.com www.nature.com
    A multimodal cell census and atlas of the mammalian primary motor cortex
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  130. www.nature.com www.nature.com
    An atlas of gene regulatory elements in adult mouse cerebrum
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    nature.com/articles/s41586-021-03604-1
  131. www.nature.com www.nature.com
    Comparative cellular analysis of motor cortex in human, marmoset and mouse
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    nature.com/articles/s41586-021-03465-8
  132. www.nature.com www.nature.com
    A transcriptomic and epigenomic cell atlas of the mouse primary motor cortex
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  133. Jul 2021
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    Conserved cell types with divergent features in human versus mouse cortex
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    nature.com/articles/s41586-019-1506-7
  135. 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
  137. 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
  139. Feb 2021
  140. www.biorxiv.org www.biorxiv.org
    An Atlas of Gene Regulatory Elements in Adult Mouse Cerebrum
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    biorxiv.org/content/10.1101/2020.05.10.087585v2
  141. Sep 2020
  142. link.springer.com link.springer.com
    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