Warning: Undefined array key "mm" in /www/wwwroot/www.ai-bt.com/si.php on line 10 Deprecated: trim(): Passing null to parameter #1 ($string) of type string is deprecated in /www/wwwroot/www.ai-bt.com/si.php on line 10 BigNeuron: Large-Scale 3D Neuron Reconstruction from Optical Microscopy Images.

Literature DB >> 26182412

BigNeuron: Large-Scale 3D Neuron Reconstruction from Optical Microscopy Images.

Hanchuan Peng¹, Michael Hawrylycz², Jane Roskams³, Sean Hill⁴, Nelson Spruston⁵, Erik Meijering⁶, Giorgio A Ascoli⁷.

Abstract

Understanding the structure of single neurons is critical for understanding how they function within neural circuits. BigNeuron is a new community effort that combines modern bioimaging informatics, recent leaps in labeling and microscopy, and the widely recognized need for openness and standardization to provide a community resource for automated reconstruction of dendritic and axonal morphology of single neurons.

Entities: Disease Species

Mesh：

Year: 2015 PMID： 26182412 PMCID： PMC4725298 DOI： 10.1016/j.neuron.2015.06.036

Source DB: PubMed Journal: Neuron ISSN： 0896-6273 Impact factor: 17.173

23 in total

1. A broadly applicable 3-D neuron tracing method based on open-curve snake.

Authors: Yu Wang; Arunachalam Narayanaswamy; Chia-Ling Tsai; Badrinath Roysam
Journal: Neuroinformatics Date: 2011-09

2. From DIADEM to BigNeuron.

Authors: Hanchuan Peng; Erik Meijering; Giorgio A Ascoli
Journal: Neuroinformatics Date: 2015-07

3. Optimized tools for multicolor stochastic labeling reveal diverse stereotyped cell arrangements in the fly visual system.

Authors: Aljoscha Nern; Barret D Pfeiffer; Gerald M Rubin
Journal: Proc Natl Acad Sci U S A Date: 2015-05-11 Impact factor: 11.205

4. Automatic Morphological Reconstruction of Neurons from Multiphoton and Confocal Microscopy Images Using 3D Tubular Models.

Authors: Alberto Santamaría-Pang; Paul Hernandez-Herrera; Manos Papadakis; Peter Saggau; Ioannis A Kakadiaris
Journal: Neuroinformatics Date: 2015-07

5. APP2: automatic tracing of 3D neuron morphology based on hierarchical pruning of a gray-weighted image distance-tree.

Authors: Hang Xiao; Hanchuan Peng
Journal: Bioinformatics Date: 2013-04-19 Impact factor: 6.937

Review 6. New insights into the classification and nomenclature of cortical GABAergic interneurons.

Authors: Javier DeFelipe; Pedro L López-Cruz; Ruth Benavides-Piccione; Concha Bielza; Pedro Larrañaga; Stewart Anderson; Andreas Burkhalter; Bruno Cauli; Alfonso Fairén; Dirk Feldmeyer; Gord Fishell; David Fitzpatrick; Tamás F Freund; Guillermo González-Burgos; Shaul Hestrin; Sean Hill; Patrick R Hof; Josh Huang; Edward G Jones; Yasuo Kawaguchi; Zoltán Kisvárday; Yoshiyuki Kubota; David A Lewis; Oscar Marín; Henry Markram; Chris J McBain; Hanno S Meyer; Hannah Monyer; Sacha B Nelson; Kathleen Rockland; Jean Rossier; John L R Rubenstein; Bernardo Rudy; Massimo Scanziani; Gordon M Shepherd; Chet C Sherwood; Jochen F Staiger; Gábor Tamás; Alex Thomson; Yun Wang; Rafael Yuste; Giorgio A Ascoli
Journal: Nat Rev Neurosci Date: 2013-02-06 Impact factor: 34.870

Review 7. Neuronal morphology goes digital: a research hub for cellular and system neuroscience.

Authors: Ruchi Parekh; Giorgio A Ascoli
Journal: Neuron Date: 2013-03-20 Impact factor: 17.173

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

Authors: Hanchuan Peng; Zongcai Ruan; Fuhui Long; Julie H Simpson; Eugene W Myers
Journal: Nat Biotechnol Date: 2010-03-14 Impact factor: 54.908

9. A GAL4-driver line resource for Drosophila neurobiology.

Authors: Arnim Jenett; Gerald M Rubin; Teri-T B Ngo; David Shepherd; Christine Murphy; Heather Dionne; Barret D Pfeiffer; Amanda Cavallaro; Donald Hall; Jennifer Jeter; Nirmala Iyer; Dona Fetter; Joanna H Hausenfluck; Hanchuan Peng; Eric T Trautman; Robert R Svirskas; Eugene W Myers; Zbigniew R Iwinski; Yoshinori Aso; Gina M DePasquale; Adrianne Enos; Phuson Hulamm; Shing Chun Benny Lam; Hsing-Hsi Li; Todd R Laverty; Fuhui Long; Lei Qu; Sean D Murphy; Konrad Rokicki; Todd Safford; Kshiti Shaw; Julie H Simpson; Allison Sowell; Susana Tae; Yang Yu; Christopher T Zugates
Journal: Cell Rep Date: 2012-10-11 Impact factor: 9.423

10. Virtual finger boosts three-dimensional imaging and microsurgery as well as terabyte volume image visualization and analysis.

Authors: Hanchuan Peng; Jianyong Tang; Hang Xiao; Alessandro Bria; Jianlong Zhou; Victoria Butler; Zhi Zhou; Paloma T Gonzalez-Bellido; Seung W Oh; Jichao Chen; Ananya Mitra; Richard W Tsien; Hongkui Zeng; Giorgio A Ascoli; Giulio Iannello; Michael Hawrylycz; Eugene Myers; Fuhui Long
Journal: Nat Commun Date: 2014-07-11 Impact factor: 14.919

69 in total

1. TReMAP: Automatic 3D Neuron Reconstruction Based on Tracing, Reverse Mapping and Assembling of 2D Projections.

Authors: Zhi Zhou; Xiaoxiao Liu; Brian Long; Hanchuan Peng
Journal: Neuroinformatics Date: 2016-01

2. Whole-body tissue stabilization and selective extractions via tissue-hydrogel hybrids for high-resolution intact circuit mapping and phenotyping.

Authors: Ken Y Chan; Nicholas C Flytzanis; Bin Yang; Jennifer B Treweek; Benjamin E Deverman; Alon Greenbaum; Antti Lignell; Cheng Xiao; Long Cai; Mark S Ladinsky; Pamela J Bjorkman; Charless C Fowlkes; Viviana Gradinaru
Journal: Nat Protoc Date: 2015-10-22 Impact factor: 13.491

BigNeuron: Large-Scale 3D Neuron Reconstruction from Optical Microscopy Images.

1. A broadly applicable 3-D neuron tracing method based on open-curve snake.

2. From DIADEM to BigNeuron.

3. Optimized tools for multicolor stochastic labeling reveal diverse stereotyped cell arrangements in the fly visual system.

4. Automatic Morphological Reconstruction of Neurons from Multiphoton and Confocal Microscopy Images Using 3D Tubular Models.

5. APP2: automatic tracing of 3D neuron morphology based on hierarchical pruning of a gray-weighted image distance-tree.

Review 6. New insights into the classification and nomenclature of cortical GABAergic interneurons.

Review 7. Neuronal morphology goes digital: a research hub for cellular and system neuroscience.

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

9. A GAL4-driver line resource for Drosophila neurobiology.

10. Virtual finger boosts three-dimensional imaging and microsurgery as well as terabyte volume image visualization and analysis.

1. TReMAP: Automatic 3D Neuron Reconstruction Based on Tracing, Reverse Mapping and Assembling of 2D Projections.

2. Whole-body tissue stabilization and selective extractions via tissue-hydrogel hybrids for high-resolution intact circuit mapping and phenotyping.

3. AutoSholl allows for automation of Sholl analysis independent of user tracing.

Review 4. Challenges in diffusion MRI tractography - Lessons learned from international benchmark competitions.

5. Brain-Wide Shape Reconstruction of a Traced Neuron Using the Convex Image Segmentation Method.

Review 6. Neuronal cell-type classification: challenges, opportunities and the path forward.

7. Automatic tracing of ultra-volumes of neuronal images.

8. SparseTracer: the Reconstruction of Discontinuous Neuronal Morphology in Noisy Images.

9. Imagining the future of bioimage analysis.

10. FMST: an Automatic Neuron Tracing Method Based on Fast Marching and Minimum Spanning Tree.