[HTML][HTML] TrakEM2 software for neural circuit reconstruction

A Cardona, S Saalfeld, J Schindelin…�- PloS one, 2012 - journals.plos.org
A key challenge in neuroscience is the expeditious reconstruction of neuronal circuits. For
model systems such as Drosophila and C. elegans, the limiting step is no longer the�…

Simple Neurite Tracer: open source software for reconstruction, visualization and analysis of neuronal processes

MH Longair, DA Baker, JD Armstrong�- Bioinformatics, 2011 - academic.oup.com
Motivation: Advances in techniques to sparsely label neurons unlock the potential to
reconstruct connectivity from 3D image stacks acquired by light microscopy. We present an�…

Semi-automated reconstruction of neural circuits using electron microscopy

DB Chklovskii, S Vitaladevuni, LK Scheffer�- Current opinion in�…, 2010 - Elsevier
Reconstructing neuronal circuits at the level of synapses is a central problem in
neuroscience, and the focus of the nascent field of connectomics. Previously used to�…

Automated reconstruction of a serial-section EM Drosophila brain with flood-filling networks and local realignment

PH Li, LF Lindsey, M Januszewski, M Tyka…�- Microscopy and�…, 2019 - cambridge.org
Large-scale connectomic reconstruction of neural circuitry at single-synapse resolution is an
attractive target for improving understanding of the nervous system in health and disease�…

Synaptic Cleft Segmentation in Non-isotropic Volume Electron Microscopy of the Complete Drosophila Brain

L Heinrich, J Funke, C Pape, J Nunez-Iglesias…�- …�Image Computing and�…, 2018 - Springer
Neural circuit reconstruction at single synapse resolution is increasingly recognized as
crucially important to decipher the function of biological nervous systems. Volume electron�…

[HTML][HTML] Learning cellular morphology with neural networks

PJ Schubert, S Dorkenwald, M Januszewski…�- Nature�…, 2019 - nature.com
Reconstruction and annotation of volume electron microscopy data sets of brain tissue is
challenging but can reveal invaluable information about neuronal circuits. Significant�…

neuTube 1.0: a new design for efficient neuron reconstruction software based on the SWC format

L Feng, T Zhao, J Kim�- eneuro, 2015 - eneuro.org
Brain circuit mapping requires digital reconstruction of neuronal morphologies in
complicated networks. Despite recent advances in automatic algorithms, reconstruction of�…

[HTML][HTML] Quantitative neuroanatomy for connectomics in Drosophila

CM Schneider-Mizell, S Gerhard, M Longair…�- Elife, 2016 - elifesciences.org
Neuronal circuit mapping using electron microscopy demands laborious proofreading or
reconciliation of multiple independent reconstructions. Here, we describe new methods to�…

Convolutional nets for reconstructing neural circuits from brain images acquired by serial section electron microscopy

K Lee, N Turner, T Macrina, J Wu, R Lu…�- Current opinion in�…, 2019 - Elsevier
Neural circuits can be reconstructed from brain images acquired by serial section electron
microscopy. Image analysis has been performed by manual labor for half a century, and�…

[HTML][HTML] Neuronal wiring diagram of an adult brain

S Dorkenwald, A Matsliah, AR Sterling, P Schlegel…�- bioRxiv, 2023 - ncbi.nlm.nih.gov
Connections between neurons can be mapped by acquiring and analyzing electron
microscopic (EM) brain images. In recent years, this approach has been applied to chunks of�…