Thomas Macrina

Cell type-resolved connectomic reconstruction of the spinal dorsal horn reveals sensory neuron synaptic organization and modality-specific inhibition

The paper presents tools to reconstruct spinal cord circuits and identifies modality-specific inhibitory synapses between sensory neurons and inhibitory neurons.

A synaptic wiring diagram underlying modality-specific ascending pathways of the superficial spinal dorsal horn

The paper maps synaptic connections in the mouse spinal dorsal horn to show how different sensory modalities are routed through distinct pathways to the brain.

Distributed control circuits across a brain-and-cord connectome

The paper presents the first densely reconstructed adult fruit fly connectome integrating the brain and ventral nerve cord, revealing distributed control circuits involving local and long-range neural connections.

New Synapse Detection in the Whole-Brain Connectome of Drosophila

The paper improves synapse detection in Drosophila brain connectomes using new neural networks, achieving better performance in challenging regions and improved neuron clustering.

CAVE: Connectome Annotation Versioning Engine

CAVE enables reproducible connectome analysis in large-scale datasets during ongoing annotation and proofreading.

NEURD offers automated proofreading and feature extraction for connectomics

NEURD automates proofreading and feature extraction from connectomics data to improve accuracy and accessibility of neural morphology analyses.

Functional connectomics spanning multiple areas of mouse visual cortex

The paper presents a functional connectomics dataset of mouse visual cortex, combining calcium imaging with EM reconstruction to study neural circuits and their connectivity.

Functional connectomics reveals general wiring rule in mouse visual cortex

Functionally similar neurons in mouse visual cortex connect preferentially across layers and areas, including feedback, and feature tuning, not receptive-field position, predicts synapses beyond axon-dendrite proximity.

An unsupervised map of excitatory neurons' dendritic morphology in the mouse visual cortex

The paper uses graph-based machine learning to analyze dendritic morphology of excitatory neurons in mouse visual cortex, finding a continuous morphological landscape rather than discrete types.

Connectome of a human foveal retina

The paper presents a connectome of the human foveal retina using deep learning, revealing novel synaptic pathways and distinct neural circuits unique to humans.

Neuronal wiring diagram of an adult brain

The paper presents the first neuronal wiring diagram of a whole adult Drosophila brain, revealing synaptic connections and circuit mechanisms underlying sensorimotor behaviors.

Tools for comprehensive reconstruction and analysis of a female Drosophila ventral nerve cord

The paper reconstructs and analyzes the female Drosophila ventral nerve cord connectome, identifying neural circuits that coordinate wings and legs during escape takeoff.

Synaptic architecture of leg and wing premotor control networks in Drosophila

The paper analyzes premotor circuits in Drosophila to compare leg and wing motor control networks, finding modular organization and differences in synaptic connectivity.

Petascale pipeline for precise alignment of images from serial section electron microscopy

The paper introduces a pipeline for aligning serial section electron microscopy images, improving accuracy and scalability for large datasets.

The Synaptic Architecture of Layer 5 Thick Tufted Excitatory Neurons in the Visual Cortex of Mice

The paper investigates the synaptic connectivity of thick tufted layer 5 pyramidal neurons in the mouse visual cortex, revealing their local inhibitory and long-range excitatory connections.

Integrating EM and Patch-seq data: Synaptic connectivity and target specificity of predicted Sst transcriptomic types

The paper predicts MET-type identities from EM data and shows they have distinct connectivity patterns and synapse targets.

Cell-type-specific inhibitory circuitry from a connectomic census of mouse visual cortex

Electron microscopy of 1352 neurons in a mouse visual cortex column reveals widespread cell-type-specific inhibition, a basket-cell-targeting disinhibitory class, and interneuron motif groups sharing excitatory targets.

Binary and analog variation of synapses between cortical pyramidal neurons

The paper maps synaptic connectivity between cortical pyramidal neurons and shows synapse size is modeled by a combination of binary and analog variables.

Perisomatic Features Enable Efficient and Dataset Wide Cell-Type Classifications Across Large-Scale Electron Microscopy Volumes

The paper uses electron microscopy data to classify cell types in the neocortex based on perisomatic features, showing that these features are sufficient for accurate classification even in large datasets.

FlyWire: Online community for whole-brain connectomics

FlyWire enables collaborative proofreading of whole-brain connectomes through an online platform, demonstrating its utility in reconstructing and analyzing mechanosensory neuron circuits.

3D reconstruction of cell nuclei in a full Drosophila brain

The paper reconstructs 3D cell nuclei in a Drosophila brain, identifying over 133,000 nuclei, mostly neurons, and highlights differences in nuclear size and cell density across brain regions.

Petascale neural circuit reconstruction: automated methods

Cloud-run convolutional nets aligned 19,939 serial EM sections of mouse visual cortex despite cracks and folds, segmented neurons and detected 523 million synapses; code and the reconstruction are public.

Oligodendrocyte precursor cells prune axons in the mouse neocortex

The paper identifies oligodendrocyte precursor cells (OPCs) as major contributors to axon pruning in the mouse neocortex through phagocytic activity.

The Neural Basis for a Persistent Internal State in Drosophila Females

This study identifies pC1-Alpha neurons in Drosophila females that drive persistent behaviors through recurrent neural connectivity.

Multiscale and multimodal reconstruction of cortical structure and function

The paper presents a semi-automated reconstruction of mouse primary visual cortex from electron microscopy data, revealing structural and functional relationships in cortical circuits.

Chandelier cell anatomy and function reveal a variably distributed but common signal

The paper maps chandelier cell synapses onto pyramidal neurons and finds variability in synaptic input correlated with target neuron features, while showing functional correlation with arousal state.

EASE: EM-Assisted Source Extraction from calcium imaging data

The paper introduces EASE, a method that matches calcium imaging signals to EM-derived cell segments in mouse visual cortex, enabling dendritic functional analysis and denoising.