Nick Dee

Multiregional single-cell profiling reveals shared and specialized cellular vulnerability in Alzheimer's disease

This study uses single-nucleus RNA-seq, ATAC-seq, and Multiome to analyze Alzheimer's disease across multiple brain regions, revealing shared and region-specific cellular vulnerabilities.

Connecting single neuron transcriptomes to the projectome in mouse visual cortex

The paper integrates transcriptomic, morphological, and electrophysiological data to define neuron types in mouse visual cortex and predict their projection targets.

Multimodal characterization of variation in neuronal types in the mouse basal ganglia

This study uses multimodal Patch-seq data to show that gene expression gradients in mouse basal ganglia neurons correlate with spatial location, physiology, and morphology.

Conserved Cell Type Signatures Across the Brainstem and Spinal Cord in the Mouse Central Nervous System

The paper maps conserved cell type signatures in the adult mouse brainstem and spinal cord using multi-omics data, revealing shared and region-specific features.

Topographic structure and function of locus coeruleus norepinephrine neurons

The paper identifies topographic organization in locus coeruleus norepinephrine neurons, linking their morphology, gene expression, and activity to specific brain regions and learning-related behaviors.

A Cross-Species Enhancer-AAV Toolkit for Cell Type-Specific Targeting Across the Basal Ganglia

The paper develops a cross-species enhancer-AAV toolkit for targeting specific cell types in the basal ganglia across species, validated in mouse and macaque.

Morphoelectric Diversity and Specialization of Neuronal Cell Types in the Primate Striatum

The paper analyzes multi-modal Patch-seq data from macaque striatum to reveal morphoelectric diversity and functional specialization of neuronal cell types, highlighting primate-specific features and differences from rodents.

Human Neocortical Glutamatergic Neurons Revealed Through Multimodal Profiling

The paper integrates multimodal data to characterize human neocortical glutamatergic neurons, revealing morphoelectric properties that distinguish transcriptomic subclasses and highlight species-specific differences.

Cross-species consensus atlas of the primate basal ganglia

The paper creates a cross-species consensus atlas of primate basal ganglia cell types using multiomic data from human, macaque, and marmoset, identifying 61 conserved cell types and a novel hybrid medium spiny neuron type.

The transcriptomic and spatial organization of telencephalic GABAergic neuronal types

The paper analyzes the transcriptomic and spatial organization of GABAergic neurons in the mouse telencephalon, revealing complex developmental and spatial relationships across multiple brain regions.

Enhancer AAVs for targeting spinal motor neurons and descending motor pathways in rodents and macaque

The paper identifies enhancers for spinal motor neurons and develops AAV vectors to target these cells in rodents and macaques, enabling functional studies and potential therapeutic applications.

Integrated multimodal cell atlas of Alzheimer's disease

This study creates an integrated multimodal cell atlas of Alzheimer's disease by analyzing single nuclei transcriptomes, epigenomes, and spatial coordinates across AD stages.

Continuous cell type diversification throughout the embryonic and postnatal mouse visual cortex development

The paper constructs a high-resolution transcriptomic and epigenomic atlas of the developing mouse visual cortex, revealing continuous cell type diversification across embryonic and postnatal stages.

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

This paper creates a high-resolution transcriptomic and spatial cell type atlas of the whole adult mouse brain, revealing spatial organization and transcription factor codes for cell types.

Transcriptomic cytoarchitecture reveals principles of human neocortex organization

The paper uses single nucleus RNA-sequencing to analyze human cortical areas, revealing cell type proportions and gene expression patterns that correlate with functional connectivity and areal specialization.

Morpho-electric and transcriptomic divergence of the layer 1 interneuron repertoire in human versus mouse neocortex

The paper identifies transcriptomic and morpho-electric diversity in human neocortical layer 1 interneurons, revealing greater subclass distinction compared to mouse.

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

The paper constructs a single-cell chromatin accessibility atlas of the human brain, identifies cell-type-specific regulatory elements, and develops models to predict regulatory function of disease risk variants.

Transcriptomic diversity of cell types across the adult human brain

This study identifies 461 cell clusters and 3313 subclusters in the adult human brain using single-nucleus RNA sequencing, revealing regional diversity in neurons and astrocytes.

Signature morpho-electric properties of diverse GABAergic interneurons in the human neocortex

The paper uses viral labeling and Patch-seq to define morpho-electric properties of GABAergic interneurons in human neocortex, revealing functional insights and reclassifying some SST neurons into PVALB subclass.

Enhancer-AAVs allow genetic access to oligodendrocytes and diverse populations of astrocytes across species

The paper develops AAV-based genetic tools to specifically target astrocytes and oligodendrocytes across species, revealing functional roles in reward-dependent acetylcholine responses.

Cell-type specific molecular signatures of aging revealed in a brain-wide transcriptomic cell-type atlas

The paper identifies cell-type-specific molecular signatures of aging in a brain-wide transcriptomic atlas of mice, revealing key changes in non-neuronal cells and specific regions like the hypothalamic third ventricle.

Target cell-specific synaptic dynamics of excitatory to inhibitory neuron connections in supragranular layers of human neocortex

The paper investigates target cell-specific synaptic dynamics between excitatory and inhibitory neurons in human neocortex, finding similarities to rodent studies.

Epigenomic complexity of the human brain revealed by single-cell DNA methylomes and 3D genome structures

The paper identifies 188 cell types in the human brain using single-cell DNA methylation and 3D genome data, and develops a tool to predict cell types based on methylation patterns.

Inter-individual variation in human cortical cell type abundance and expression

The paper assesses inter-individual variation in human cortical cell types across 75 individuals, finding significant variation in abundance and gene expression, particularly in deep layer glutamatergic neurons.

Local Connectivity and Synaptic Dynamics in Mouse and Human Neocortex

The paper presents a synaptic physiology dataset and analysis platform to study cortical microcircuit structure and synaptic properties in mouse and human neocortex, revealing layer-dependent connectivity and subclass-specific dynamics.

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

The paper compares cellular diversity in the primary motor cortex across human, marmoset, and mouse using single-nucleus transcriptomics and epigenomics, finding conserved cell types and species-specific adaptations.

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

The paper generates a multimodal cell census and atlas of the mammalian primary motor cortex, revealing a unified molecular genetic landscape and cross-species taxonomy of cell types.

An integrated transcriptomic and epigenomic atlas of mouse primary motor cortex cell types

The paper creates a comprehensive atlas of mouse primary motor cortex cell types using integrated transcriptomic and epigenomic data from over 600,000 samples.

Cellular resolution anatomical and molecular atlases for prenatal human brains

This study creates two high-resolution anatomical atlases of prenatal human brains at PCW 15 and 21, annotated with gene expression and cytoarchitecture to identify developmental features.

Signature morpho-electric, transcriptomic, and dendritic properties of extratelencephalic-projecting human layer 5 neocortical pyramidal neurons

The paper identifies conserved and divergent morpho-electric and transcriptomic properties of human and rodent layer 5 extratelencephalic-projecting neurons using patch-seq in human brain slices.