Brian E. Kalmbach

The Unreasonable Effectiveness of Cell Types in Describing Neuronal Physiological Features

On 495 human Patch-seq neurons, cell type means predicted electrophysiology better than neural networks on scGPT embeddings or gene panels; fusing scGPT embeddings with cell type labels predicted best.

Iterative co-creation of harmonized human and non-human primate cellular and structural ontologies and 3D common coordinate frameworks for the basal ganglia

The paper describes the iterative creation of harmonized ontologies and 3D frameworks for the basal ganglia across human and non-human primates to enable cross-species comparisons of cellular and molecular data.

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.

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.

A Multimodal Single-Cell Epigenomic and 3D Genome Atlas of the Human Basal Ganglia

This paper creates a multimodal single-cell atlas of the human basal ganglia, revealing epigenomic and 3D genome features across cell types and linking them to disease-associated genetic risk.

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.

HCN channels reveal conserved and divergent physiology in supragranular pyramidal neurons in primate species

The paper examines HCN-channel properties in primate supragranular pyramidal neurons, finding conserved traits across species with some divergence in magnitude between humans and macaques.

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.

Expansion-assisted selective plane illumination microscopy for nanoscale imaging of centimeter-scale tissues

The paper introduces ExA-SPIM, a microscope that enables high-resolution imaging of large tissue samples without sectioning, demonstrating its use on mouse brains and human white matter.

A suite of enhancer AAVs and transgenic mouse lines for genetic access to cortical cell types

The paper develops a toolkit of transgenic mouse lines and enhancer AAVs for selective targeting of cortical cell populations using transcriptomic and epigenomic data.

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.

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.

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.

Morpho-electric and computational properties of three types of human hippocampal CA1 pyramidal neurons

The paper maps morpho-electric and computational properties of human hippocampal CA1 pyramidal neurons and identifies three distinct cell types with unique biophysical features.

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.

Impaired dendritic spike generation in the Fragile X prefrontal cortex is due to loss of dendritic sodium channels

The paper investigates dendritic spike generation in prefrontal cortex neurons of Fragile X mice and finds impaired sodium channel function leading to altered input-output transformation.

Multi-modal characterization and simulation of human epileptic circuitry

This study characterizes and simulates changes in human hippocampal granule cells during epilepsy progression, identifying ion channel modifications that increase excitability.

Single-neuron models linking electrophysiology, morphology and transcriptomics across cortical cell types

The paper generates and evaluates over 130 million single-neuron models with active conductances to link electrophysiology, morphology, and transcriptomics across cortical cell types.

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.

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.

Scaled, high fidelity electrophysiological, morphological, and transcriptomic cell characterization

The paper describes an optimized Patch-seq technique for high-quality electrophysiological, morphological, and transcriptomic characterization of neurons, along with software tools for data acquisition and analysis.

Fragile X Mental Retardation Protein modulates somatic D-type K+ channels and action potential threshold in the mouse prefrontal cortex

This study shows that FMRP regulates D-type K+ channels in ET neurons of the prefrontal cortex, affecting action potential threshold in FX mice.

Enhancer viruses and a transgenic platform for combinatorial cell subclass-specific labeling

The paper develops enhancer viruses and a transgenic mouse line to enable combinatorial labeling of specific neuronal subclasses in the mouse cortex and human slices.

Human cortical expansion involves diversification and specialization of supragranular intratelencephalic-projecting neurons

The paper identifies transcriptomic diversity in human supragranular neurons and links it to functional specialization and disease vulnerability.

Transcriptomic evidence that von Economo neurons are regionally specialized extratelencephalic-projecting excitatory neurons

The paper identifies von Economo neurons as a regionally specialized subtype of extratelencephalic-projecting excitatory neurons using single nucleus RNA-sequencing and cross-species comparisons.

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

The paper identifies enhancer elements that drive subclass-specific gene expression in neocortex across mouse, primate, and human species using comparative epigenetics and AAV-based functional assays.

h-channels contribute to divergent electrophysiological properties of supragranular pyramidal neurons in human versus mouse cerebral cortex

The paper shows that h-channels contribute to differences in electrophysiological properties between human and mouse supragranular pyramidal neurons.

A robust ex vivo experimental platform for molecular-genetic dissection of adult human neocortical cell types and circuits

This paper describes an ex vivo platform for studying adult human neocortical cell types and circuits using acute and cultured brain slices, enabling molecular-genetic manipulation and neuronal activity monitoring.