Rapid Reconstruction of 3D Neuronal Morphology from Light Microscopy Images with Augmented Rayburst Sampling

Continuously tracing brain-wide long-distance axonal projections in mice at a one-micron voxel resolution

(2013) Hui Gong et al.   NEUROIMAGE

Development of a Plastic Embedding Method for Large-Volume and Fluorescent-Protein-Expressing Tissues

(2013) Zhongqin Yang et al.   PLoS One

Automatic Reconstruction of Neural Morphologies with Multi-Scale Tracking

(2012) Anna Choromanska et al.   Frontiers in Neural Circuits

Neuromantic – from Semi-Manual to Semi-Automatic Reconstruction of Neuron Morphology

(2012) Darren R. Myatt et al.   Frontiers in Neuroinformatics

Automatic 3D neuron tracing using all-path pruning

(2011) H. Peng et al.   BIOINFORMATICS

Anisotropic path searching for automatic neuron reconstruction

(2011) Jun Xie et al.   MEDICAL IMAGE ANALYSIS

The DIADEM Data Sets: Representative Light Microscopy Images of Neuronal Morphology to Advance Automation of Digital Reconstructions

(2011) Kerry M. Brown et al.   NEUROINFORMATICS

A Broadly Applicable 3-D Neuron Tracing Method Based on Open-Curve Snake

(2011) Yu Wang et al.   NEUROINFORMATICS

The FARSIGHT Trace Editor: An Open Source Tool for 3-D Inspection and Efficient Pattern Analysis Aided Editing of Automated Neuronal Reconstructions

(2011) Jonathan Luisi et al.   NEUROINFORMATICS

Automated Reconstruction of Neuronal Morphology Based on Local Geometrical and Global Structural Models

(2011) Ting Zhao et al.   NEUROINFORMATICS

Automated Reconstruction of Dendritic and Axonal Trees by Global Optimization with Geometric Priors

(2011) Engin Türetken et al.   NEUROINFORMATICS

Automated Tracing of Neurites from Light Microscopy Stacks of Images

(2011) Paarth Chothani et al.   NEUROINFORMATICS

The DIADEM Metric: Comparing Multiple Reconstructions of the Same Neuron

(2011) Todd A. Gillette et al.   NEUROINFORMATICS

The DIADEM and Beyond

(2011) Yuan Liu   NEUROINFORMATICS

Automatic reconstruction of 3D neuron structures using a graph-augmented deformable model

(2010) H. Peng et al.   BIOINFORMATICS

Automated reconstruction of neuronal morphology: An overview

(2010) Duncan E. Donohue et al.   BRAIN RESEARCH REVIEWS

VascuSynth: Simulating vascular trees for generating volumetric image data with ground-truth segmentation and tree analysis

(2010) Ghassan Hamarneh et al.   COMPUTERIZED MEDICAL IMAGING AND GRAPHICS

Neuron tracing in perspective

(2010) Erik Meijering   CYTOMETRY PART A

Modified Golgi-Cox method for micrometer scale sectioning of the whole mouse brain

(2010) Bin Zhang et al.   JOURNAL OF NEUROSCIENCE METHODS

V3D enables real-time 3D visualization and quantitative analysis of large-scale biological image data sets

(2010) Hanchuan Peng et al.   NATURE BIOTECHNOLOGY

Proof-editing is the Bottleneck Of 3D Neuron Reconstruction: The Problem and Solutions

(2010) Hanchuan Peng et al.   NEUROINFORMATICS

Micro-Optical Sectioning Tomography to Obtain a High-Resolution Atlas of the Mouse Brain

(2010) A. Li et al.   SCIENCE

Three-dimensional neuron tracing by voxel scooping

(2009) Alfredo Rodriguez et al.   JOURNAL OF NEUROSCIENCE METHODS

The Central Role of Neuroinformatics in the National Academy of Engineering’s Grandest Challenge: Reverse Engineer the Brain

(2009) Badrinath Roysam et al.   NEUROINFORMATICS

MDL Constrained 3-D Grayscale Skeletonization Algorithm for Automated Extraction of Dendrites and Spines from Fluorescence Confocal Images

(2009) Xiaosong Yuan et al.   NEUROINFORMATICS

Semi-Automated Reconstruction of Neural Processes from Large Numbers of Fluorescence Images

(2009) Ju Lu et al.   PLoS One

The Interscutularis Muscle Connectome

(2009) Ju Lu et al.   PLOS BIOLOGY

Hardware Accelerated Segmentation of Complex Volumetric Filament Networks

(2008) David Mayerich et al.   IEEE TRANSACTIONS ON VISUALIZATION AND COMPUTER GRAPHICS

Detection of the optimal neuron traces in confocal microscopy images

(2008) Zlatko Vasilkoski et al.   JOURNAL OF NEUROSCIENCE METHODS

Improved detection of branching points in algorithms for automated neuron tracing from 3D confocal images

(2007) Yousef Al-Kofahi et al.   CYTOMETRY PART A