Zhi Zhou

BigNeuron: A resource to benchmark and predict best-performing algorithms for automated reconstruction of neuronal morphology

BigNeuron benchmarks automatic neuron reconstruction algorithms using gold standard annotations and image quality metrics, showing that consensus methods outperform individual algorithms.

Toward an integrated classification of neuronal cell types: morphoelectric and transcriptomic characterization of individual GABAergic cortical neurons

The paper characterizes transcriptomic and physiological properties of GABAergic cortical neurons in mice, identifying 20 interneuron met-types with consistent features across modalities.

Brain-wide single neuron reconstruction reveals morphological diversity in molecularly defined striatal, thalamic, cortical and claustral neuron types

Complete morphologies of 1,708 neurons, sparsely labelled and imaged whole-brain with fMOST, expose region-specific long-range projection rules and finer diversity than current transcriptomic subtypes capture.

TeraVR Empowers Precise Reconstruction of Complete 3-D Neuronal Morphology in the Whole Brain

The paper introduces TeraVR, a virtual reality system for precise 3-D neuronal morphology reconstruction in whole mouse brains, enabling collaborative and efficient annotation of complex neuronal structures.

Classification of electrophysiological and morphological types in mouse visual cortex

The paper classifies neurons in mouse visual cortex into 17 electrophysiological and 35 morphological types using unsupervised methods and links them to transcriptomic types.

DeepNeuron: An Open Deep Learning Toolbox for Neuron Tracing

DeepNeuron is an open-source deep learning toolbox that improves neuron tracing in light microscopy images by learning features and rules from data to address challenges in detecting, connecting, and classifying neuronal structures.

Exploring morphological motifs for a single neuron based on multiple 3D reconstructions

The paper proposes a Vaa3D-based framework to identify reliable morphological motifs from multiple 3D neuron reconstructions using a dataset of fruitfly neurons.

SmartScope2: Simultaneous Imaging and Reconstruction of Neuronal Morphology

SmartScope2 is an automated neuron reconstruction tool that reduces image data requirements and increases imaging speed for human and mouse cortical neurons.

Automatic Tracing of Ultra-Volume of Neuronal Images

UltraTracer extends neuron-tracing algorithms to handle ultra-large image datasets, achieving scalability and efficiency improvements over existing methods.