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View article: The synaptic architecture of layer 5 thick tufted excitatory neurons in mouse visual cortex
The synaptic architecture of layer 5 thick tufted excitatory neurons in mouse visual cortex Open
Despite significant progress in characterizing neocortical cell types, a complete understanding of the synaptic connections of individual excitatory cells remains elusive. This study investigates the connectivity of mouse visual cortex thi…
View article: Connectomics of predicted Sst transcriptomic types in mouse visual cortex
Connectomics of predicted Sst transcriptomic types in mouse visual cortex Open
Neural circuit function is shaped both by the cell types that comprise the circuit and the connections between them1. Neural cell types have previously been defined by morphology2,3, electrophysiology4, transcriptomic expression5,6, connec…
View article: An unsupervised map of excitatory neuron dendritic morphology in the mouse visual cortex
An unsupervised map of excitatory neuron dendritic morphology in the mouse visual cortex Open
Neurons in the neocortex exhibit astonishing morphological diversity, which is critical for properly wiring neural circuits and giving neurons their functional properties. However, the organizational principles underlying this morphologica…
View article: Functional connectomics reveals general wiring rule in mouse visual cortex
Functional connectomics reveals general wiring rule in mouse visual cortex Open
Understanding the relationship between circuit connectivity and function is crucial for uncovering how the brain computes. In mouse primary visual cortex, excitatory neurons with similar response properties are more likely to be synaptical…
View article: Functional connectomics spanning multiple areas of mouse visual cortex
Functional connectomics spanning multiple areas of mouse visual cortex Open
Understanding the brain requires understanding neurons’ functional responses to the circuit architecture shaping them. Here we introduce the MICrONS functional connectomics dataset with dense calcium imaging of around 75,000 neurons in pri…
View article: Inhibitory specificity from a connectomic census of mouse visual cortex
Inhibitory specificity from a connectomic census of mouse visual cortex Open
Mammalian cortex features a vast diversity of neuronal cell types, each with characteristic anatomical, molecular and functional properties1. Synaptic connectivity shapes how each cell type participates in the cortical circuit, but mapping…
View article: NEURD offers automated proofreading and feature extraction for connectomics
NEURD offers automated proofreading and feature extraction for connectomics Open
We are in the era of millimetre-scale electron microscopy volumes collected at nanometre resolution 1,2 . Dense reconstruction of cellular compartments in these electron microscopy volumes has been enabled by recent advances in machine lea…
View article: The Synaptic Architecture of Layer 5 Thick Tufted Excitatory Neurons in the Visual Cortex of Mice
The Synaptic Architecture of Layer 5 Thick Tufted Excitatory Neurons in the Visual Cortex of Mice Open
The neocortex is composed of microcircuits built from distinct cell types. Despite significant progress in characterizing these cell types, understanding the full synaptic connections of individual excitatory cells remains elusive. This st…
View article: Data for Cell-type-specific inhibitory circuitry from a connectomic census of mouse visual cortex
Data for Cell-type-specific inhibitory circuitry from a connectomic census of mouse visual cortex Open
Data for the Biorxiv preprint: Cell-type-specific inhibitory circuitry from a connectomic census of mouse visual cortex (Biorxiv link). In brief, this data archive includes information about the skeleton morphology and synaptic features of…
View article: Data for Cell-type-specific inhibitory circuitry from a connectomic census of mouse visual cortex
Data for Cell-type-specific inhibitory circuitry from a connectomic census of mouse visual cortex Open
Data for the Biorxiv preprint: Cell-type-specific inhibitory circuitry from a connectomic census of mouse visual cortex (Biorxiv link). In brief, this data archive includes information about the skeleton morphology and synaptic features of…
View article: The Synaptic Architecture of Layer 5 Thick Tufted Excitatory Neurons in the Visual Cortex of Mice
The Synaptic Architecture of Layer 5 Thick Tufted Excitatory Neurons in the Visual Cortex of Mice Open
Summary The neocortex is one of the most critical structures that makes us human, and it is involved in a variety of cognitive functions from perception to sensory integration and motor control. Composed of repeated modules, or microcircui…
View article: CAVE: Connectome Annotation Versioning Engine
CAVE: Connectome Annotation Versioning Engine Open
Advances in Electron Microscopy, image segmentation and computational infrastructure have given rise to large-scale and richly annotated connectomic datasets which are increasingly shared across communities. To enable collaboration, users …
View article: Integrating EM and Patch-seq data: Synaptic connectivity and target specificity of predicted Sst transcriptomic types
Integrating EM and Patch-seq data: Synaptic connectivity and target specificity of predicted Sst transcriptomic types Open
Neural circuit function is shaped both by the cell types that comprise the circuit and the connections between those cell types 1 . Neural cell types have previously been defined by morphology 2, 3 , electrophysiology 4, 5 , transcriptomic…
View article: NEURD offers automated proofreading and feature extraction for connectomics
NEURD offers automated proofreading and feature extraction for connectomics Open
We are now in the era of millimeter-scale electron microscopy (EM) volumes collected at nanometer resolution (Shapson-Coe et al., 2021; Consortium et al., 2021). Dense reconstruction of cellular compartments in these EM volumes has been en…
View article: Functional connectomics reveals general wiring rule in mouse visual cortex
Functional connectomics reveals general wiring rule in mouse visual cortex Open
Understanding the relationship between circuit connectivity and function is crucial for uncovering how the brain implements computation. In the mouse primary visual cortex (V1), excitatory neurons with similar response properties are more …
View article: Data for Cell-type-specific inhibitory circuitry from a connectomic census of mouse visual cortex
Data for Cell-type-specific inhibitory circuitry from a connectomic census of mouse visual cortex Open
Data for the Biorxiv preprint: Cell-type-specific inhibitory circuitry from a connectomic census of mouse visual cortex (Biorxiv link). In brief, this data archive includes information about the skeleton morphology and synaptic features of…
View article: Cell-type-specific inhibitory circuitry from a connectomic census of mouse visual cortex
Cell-type-specific inhibitory circuitry from a connectomic census of mouse visual cortex Open
Mammalian cortex features a vast diversity of neuronal cell types, each with characteristic anatomical, molecular and functional properties. Synaptic connectivity powerfully shapes how each cell type participates in the cortical circuit, b…
View article: An unsupervised map of excitatory neurons’ dendritic morphology in the mouse visual cortex
An unsupervised map of excitatory neurons’ dendritic morphology in the mouse visual cortex Open
Neurons in the neocortex exhibit astonishing morphological diversity which is critical for properly wiring neural circuits and giving neurons their functional properties. However, the organizational principles underlying this morphological…
View article: Perisomatic Features Enable Efficient and Dataset Wide Cell-Type Classifications Across Large-Scale Electron Microscopy Volumes
Perisomatic Features Enable Efficient and Dataset Wide Cell-Type Classifications Across Large-Scale Electron Microscopy Volumes Open
Mammalian neocortex contains a highly diverse set of cell types. These types have been mapped systematically using a variety of molecular, electrophysiological and morphological approaches. Each modality offers new perspectives on the vari…
View article: Petascale neural circuit reconstruction: automated methods
Petascale neural circuit reconstruction: automated methods Open
3D electron microscopy (EM) has been successful at mapping invertebrate nervous systems, but the approach has been limited to small chunks of mammalian brains. To scale up to larger volumes, we have built a computational pipeline for proce…
View article: Large-scale neuroanatomy using LASSO: Loop-based Automated Serial Sectioning Operation
Large-scale neuroanatomy using LASSO: Loop-based Automated Serial Sectioning Operation Open
Serial section transmission electron microscopy (ssTEM) is the most promising tool for investigating the three-dimensional anatomy of the brain with nanometer resolution. Yet as the field progresses to larger volumes of brain tissue, new m…