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Vaa3D Google Code website
Description: Vaa3D Google Code website with a lot of documentations
Updated: Jun 27, 2013
Vaa3D User Manual
Description: A User Manual of How to Use Basic Functions of Vaa3D
Updated: Nov 8, 2011
PubMed Mentions ( 117 )+
Surface visualization at CT colonography simulated colonoscopy: effect of varying field of view and retrograde view.
Description: East, James E, et al. Surface visualization at CT colonography simulated colonoscopy: effect of varying field of view and retrograde view. ''Am J Gastroenterol''. 2007 Nov; '''102''' (11):2529-35
Updated: Dec 16, 2017
Impact of a CT colonography screening program on endoscopic colonoscopy in clinical practice.
Description: Schwartz, Darren C, et al. Impact of a CT colonography screening program on endoscopic colonoscopy in clinical practice. ''Am J Gastroenterol''. 2008 Feb; '''103''' (2):346-51
Updated: Dec 16, 2017
Findings on optical colonoscopy after positive CT colonography exam.
Description: Cornett, Daniel, et al. Findings on optical colonoscopy after positive CT colonography exam. ''Am J Gastroenterol''. 2008 Aug; '''103''' (8):2068-74
Updated: Dec 16, 2017
Visualization of image data from cells to organisms.
Description: Walter, Thomas, et al. Visualization of image data from cells to organisms. ''Nat Methods''. 2010 Mar; '''7''' (3 Suppl):S26-41
Updated: Dec 16, 2017
Visualization of multiple alignments, phylogenies and gene family evolution.
Description: Procter, James B, et al. Visualization of multiple alignments, phylogenies and gene family evolution. ''Nat Methods''. 2010 Mar; '''7''' (3 Suppl):S16-25
Updated: Dec 16, 2017
V3D enables real-time 3D visualization and quantitative analysis of large-scale biological image data sets.
Description: Peng, Hanchuan, et al. V3D enables real-time 3D visualization and quantitative analysis of large-scale biological image data sets. ''Nat Biotechnol''. 2010 Apr; '''28''' (4):348-53
Updated: Dec 16, 2017
Connecting the dots in 3D.
Description: Evanko, Daniel. Connecting the dots in 3D. ''Nat Methods''. 2010 May; '''7''' (5):344-5
Updated: Dec 16, 2017
A comparison of optical colonoscopy and CT colonography screening strategies in the detection and recovery of subcentimeter adenomas.
Description: Benson, Mark, et al. A comparison of optical colonoscopy and CT colonography screening strategies in the detection and recovery of subcentimeter adenomas. ''Am J Gastroenterol''. 2010 Dec; '''105''' (12):2578-85
Updated: Dec 16, 2017
Trends in computational biology-2010.
Description: Mak, H Craig. Trends in computational biology-2010. ''Nat Biotechnol''. 2011 Jan; '''29''' (1):45-9
Updated: Dec 16, 2017
AGRP neurons are sufficient to orchestrate feeding behavior rapidly and without training.
Description: Aponte, Yexica, et al. AGRP neurons are sufficient to orchestrate feeding behavior rapidly and without training. ''Nat Neurosci''. 2011 Mar; '''14''' (3):351-5
Updated: Dec 16, 2017
Bringing fly brains in line.
Description: Huetteroth, Wolf, et al. Bringing fly brains in line. ''Nat Methods''. 2011 Jun; '''8''' (6):461-3
Updated: Dec 16, 2017
High-accuracy neurite reconstruction for high-throughput neuroanatomy.
Description: Helmstaedter, Moritz, et al. High-accuracy neurite reconstruction for high-throughput neuroanatomy. ''Nat Neurosci''. 2011 Jul 10; '''14''' (8):1081-8
Updated: Dec 16, 2017
mGRASP enables mapping mammalian synaptic connectivity with light microscopy.
Description: Kim, Jinhyun, et al. mGRASP enables mapping mammalian synaptic connectivity with light microscopy. ''Nat Methods''. 2011 Dec 4; '''9''' (1):96-102
Updated: Dec 16, 2017
Visualization and analysis of 3D microscopic images.
Description: Long, Fuhui, et al. Visualization and analysis of 3D microscopic images. ''PLoS Comput Biol''. 2012; '''8''' (6):e1002519
Updated: Sep 28, 2019
Interspecies activity correlations reveal functional correspondence between monkey and human brain areas.
Description: Mantini, Dante, et al. Interspecies activity correlations reveal functional correspondence between monkey and human brain areas. ''Nat Methods''. 2012 Feb 5; '''9''' (3):277-82
Updated: Dec 16, 2017
The integration of motion and disparity cues to depth in dorsal visual cortex.
Description: Ban, Hiroshi, et al. The integration of motion and disparity cues to depth in dorsal visual cortex. ''Nat Neurosci''. 2012 Feb 12; '''15''' (4):636-43
Updated: Dec 16, 2017
Quantitative high-speed imaging of entire developing embryos with simultaneous multiview light-sheet microscopy.
Description: Tomer, Raju, et al. Quantitative high-speed imaging of entire developing embryos with simultaneous multiview light-sheet microscopy. ''Nat Methods''. 2012 Jun 3; '''9''' (7):755-63
Updated: Dec 16, 2017
Unravelling cerebellar pathways with high temporal precision targeting motor and extensive sensory and parietal networks.
Description: Sultan, Fahad, et al. Unravelling cerebellar pathways with high temporal precision targeting motor and extensive sensory and parietal networks. ''Nat Commun''. 2012 Jun 26; '''3''': 924
Updated: Dec 16, 2017
BioImageXD: an open, general-purpose and high-throughput image-processing platform.
Description: Kankaanpaa, Pasi, et al. BioImageXD: an open, general-purpose and high-throughput image-processing platform. ''Nat Methods''. 2012 Jun 28; '''9''' (7):683-9
Updated: Dec 16, 2017
Biological imaging software tools.
Description: Eliceiri, Kevin W, et al. Biological imaging software tools. ''Nat Methods''. 2012 Jun 28; '''9''' (7):697-710
Updated: Dec 16, 2017
Current challenges in open-source bioimage informatics.
Description: Cardona, Albert, et al. Current challenges in open-source bioimage informatics. ''Nat Methods''. 2012 Jun 28; '''9''' (7):661-5
Updated: Dec 16, 2017
Fiji: an open-source platform for biological-image analysis.
Description: Schindelin, Johannes, et al. Fiji: an open-source platform for biological-image analysis. ''Nat Methods''. 2012 Jun 28; '''9''' (7):676-82
Updated: Dec 16, 2017
Transvection is common throughout the Drosophila genome.
Description: Mellert, David J, et al. Transvection is common throughout the Drosophila genome. ''Genetics''. 2012 Aug; '''191''' (4):1129-41
Updated: Sep 28, 2019
Deconstruction of a neural circuit for hunger.
Description: Atasoy, Deniz, et al. Deconstruction of a neural circuit for hunger. ''Nature''. 2012 Aug 9; '''488''' (7410):172-7
Updated: Dec 16, 2017
TeraStitcher - a tool for fast automatic 3D-stitching of teravoxel-sized microscopy images.
Description: Bria, Alessandro, et al. TeraStitcher - a tool for fast automatic 3D-stitching of teravoxel-sized microscopy images. ''BMC Bioinformatics''. 2012 Nov 27; '''13''': 316
Updated: Sep 28, 2019
Label retaining cells (LRCs) with myoepithelial characteristic from the proximal acinar region define stem cells in the sweat gland.
Description: Leung, Yvonne, et al. Label retaining cells (LRCs) with myoepithelial characteristic from the proximal acinar region define stem cells in the sweat gland. ''PLoS One''. 2013; '''8''' (9):e74174
Updated: Sep 28, 2019
NeuroGPS: automated localization of neurons for brain circuits using L1 minimization model.
Description: Quan, Tingwei, et al. NeuroGPS: automated localization of neurons for brain circuits using L1 minimization model. ''Sci Rep''. 2013; '''3''': 1414
Updated: Dec 16, 2017
New TACTICS for finding Numb.
Description: Roybal, Kole T, et al. New TACTICS for finding Numb. ''Immunol Cell Biol''. 2013 Jan; '''91''' (1):1-2
Updated: Dec 16, 2017
Software tool for 3D extraction of germinal centers.
Description: Olivieri, David N, et al. Software tool for 3D extraction of germinal centers. ''BMC Bioinformatics''. 2013; '''14 Suppl 6''': S5
Updated: Sep 28, 2019
Variability in visual cortex size reflects tradeoff between local orientation sensitivity and global orientation modulation.
Description: Song, Chen, et al. Variability in visual cortex size reflects tradeoff between local orientation sensitivity and global orientation modulation. ''Nat Commun''. 2013; '''4''': 2201
Updated: Dec 16, 2017
Specialized and independent processing of orientation and shape in visual field maps LO1 and LO2.
Description: Silson, Edward H, et al. Specialized and independent processing of orientation and shape in visual field maps LO1 and LO2. ''Nat Neurosci''. 2013 Mar; '''16''' (3):267-9
Updated: Dec 16, 2017
A distance-field based automatic neuron tracing method.
Description: Yang, Jinzhu, et al. A distance-field based automatic neuron tracing method. ''BMC Bioinformatics''. 2013 Mar 12; '''14''': 93
Updated: Dec 16, 2017
Light microscopy applications in systems biology: opportunities and challenges.
Description: Antony, Paul Michel Aloyse, et al. Light microscopy applications in systems biology: opportunities and challenges. ''Cell Commun Signal''. 2013 Apr 11; '''11''' (1):24
Updated: Sep 28, 2019
Novel and quick coronary image analysis by instant stent-accentuated three-dimensional optical coherence tomography system in catheterization laboratory.
Description: Nakao, Fumiaki, et al. Novel and quick coronary image analysis by instant stent-accentuated three-dimensional optical coherence tomography system in catheterization laboratory. ''Cardiovasc Interv Ther''. 2013 Jul; '''28''' (3):235-41
Updated: Dec 16, 2017
Guide wire shadow assessed by shading index is reduced in sparse spring coil wire in optical coherence tomography.
Description: Nakao, Fumiaki, et al. Guide wire shadow assessed by shading index is reduced in sparse spring coil wire in optical coherence tomography. ''Cardiovasc Interv Ther''. 2013 Oct; '''28''' (4):362-7
Updated: Dec 16, 2017
Automated image computing reshapes computational neuroscience.
Description: Peng, Hanchuan, et al. Automated image computing reshapes computational neuroscience. ''BMC Bioinformatics''. 2013 Oct 4; '''14''': 293
Updated: Sep 28, 2019
BIOCAT: a pattern recognition platform for customizable biological image classification and annotation.
Description: Zhou, Jie, et al. BIOCAT: a pattern recognition platform for customizable biological image classification and annotation. ''BMC Bioinformatics''. 2013 Oct 4; '''14''': 291
Updated: Dec 16, 2017
Micron-scale resolution optical tomography of entire mouse brains with confocal light sheet microscopy.
Description: Silvestri, Ludovico, et al. Micron-scale resolution optical tomography of entire mouse brains with confocal light sheet microscopy. ''J Vis Exp''. 2013 Oct 8;
Updated: Sep 28, 2019
Attention modulates spatial priority maps in the human occipital, parietal and frontal cortices.
Description: Sprague, Thomas C, et al. Attention modulates spatial priority maps in the human occipital, parietal and frontal cortices. ''Nat Neurosci''. 2013 Dec; '''16''' (12):1879-87
Updated: Dec 16, 2017
Extensible visualization and analysis for multidimensional images using Vaa3D.
Description: Peng, Hanchuan, et al. Extensible visualization and analysis for multidimensional images using Vaa3D. ''Nat Protoc''. 2014 Jan; '''9''' (1):193-208
Updated: Dec 16, 2017
RIVETS: a mechanical system for in vivo and in vitro electrophysiology and imaging.
Description: Osborne, Jason E, et al. RIVETS: a mechanical system for in vivo and in vitro electrophysiology and imaging. ''PLoS One''. 2014; '''9''' (2):e89007
Updated: Sep 28, 2019
Extraction of protein profiles from primary neurons using active contour models and wavelets.
Description: Misiak, Danny, et al. Extraction of protein profiles from primary neurons using active contour models and wavelets. ''J Neurosci Methods''. 2014 Mar 30; '''225''': 1-12
Updated: Sep 28, 2019
Virtual finger boosts three-dimensional imaging and microsurgery as well as terabyte volume image visualization and analysis.
Description: Peng, Hanchuan, et al. Virtual finger boosts three-dimensional imaging and microsurgery as well as terabyte volume image visualization and analysis. ''Nat Commun''. 2014 Jul 11; '''5''': 4342
Updated: Sep 28, 2019
A simple method for 3D analysis of immunolabeled axonal tracts in a transparent nervous system.
Description: Belle, Morgane, et al. A simple method for 3D analysis of immunolabeled axonal tracts in a transparent nervous system. ''Cell Rep''. 2014 Nov 20; '''9''' (4):1191-201
Updated: Sep 28, 2019
Interactive visual exploration of overlapping similar structures for three-dimensional microscope images.
Description: Nakao, Megumi, et al. Interactive visual exploration of overlapping similar structures for three-dimensional microscope images. ''BMC Bioinformatics''. 2014 Dec 19; '''15''': 415
Updated: Dec 16, 2017
Micro-CT imaging of Randall's plaques.
Description: Williams, James C Jr, et al. Micro-CT imaging of Randall's plaques. ''Urolithiasis''. 2015 Jan; '''43 Suppl 1''': 13-7
Updated: Dec 16, 2017
neuTube 1.0: A New Design for Efficient Neuron Reconstruction Software Based on the SWC Format.
Description: Feng, Linqing, et al. neuTube 1.0: A New Design for Efficient Neuron Reconstruction Software Based on the SWC Format. ''eNeuro''. 2015 Jan-Feb; '''2''' (1):
Updated: Sep 28, 2019
LittleQuickWarp: an ultrafast image warping tool.
Description: Qu, Lei, et al. LittleQuickWarp: an ultrafast image warping tool. ''Methods''. 2015 Feb; '''73''': 38-42
Updated: Sep 28, 2019
SOAX: a software for quantification of 3D biopolymer networks.
Description: Xu, Ting, et al. SOAX: a software for quantification of 3D biopolymer networks. ''Sci Rep''. 2015 Mar 13; '''5''': 9081
Updated: Sep 28, 2019
Adaptive Image Enhancement for Tracing 3D Morphologies of Neurons and Brain Vasculatures.
Description: Zhou, Zhi, et al. Adaptive Image Enhancement for Tracing 3D Morphologies of Neurons and Brain Vasculatures. ''Neuroinformatics''. 2015 Apr; '''13''' (2):153-66
Updated: Sep 28, 2019
Learning-guided automatic three dimensional synapse quantification for drosophila neurons.
Description: Sanders, Jonathan, et al. Learning-guided automatic three dimensional synapse quantification for drosophila neurons. ''BMC Bioinformatics''. 2015 May 28; '''16''': 177
Updated: Sep 28, 2019
Global analysis of gene expression and projection target correlations in the mouse brain.
Description: Fakhry, Ahmed, et al. Global analysis of gene expression and projection target correlations in the mouse brain. ''Brain Inform''. 2015 Jun; '''2''' (2):107-117
Updated: Sep 28, 2019
Spastin and ESCRT-III coordinate mitotic spindle disassembly and nuclear envelope sealing.
Description: Vietri, Marina, et al. Spastin and ESCRT-III coordinate mitotic spindle disassembly and nuclear envelope sealing. ''Nature''. 2015 Jun 11; '''522''' (7555):231-5
Updated: Dec 16, 2017
BigNeuron: Large-Scale 3D Neuron Reconstruction from Optical Microscopy Images.
Description: Peng, Hanchuan, et al. BigNeuron: Large-Scale 3D Neuron Reconstruction from Optical Microscopy Images. ''Neuron''. 2015 Jul 15; '''87''' (2):252-6
Updated: Sep 28, 2019
SmartTracing: self-learning-based Neuron reconstruction.
Description: Chen, Hanbo, et al. SmartTracing: self-learning-based Neuron reconstruction. ''Brain Inform''. 2015 Sep; '''2''' (3):135-144
Updated: Sep 28, 2019
Automatic Dendritic Length Quantification for High Throughput Screening of Mature Neurons.
Description: Smafield, Timothy, et al. Automatic Dendritic Length Quantification for High Throughput Screening of Mature Neurons. ''Neuroinformatics''. 2015 Oct; '''13''' (4):443-58
Updated: Dec 16, 2017
Impact of single-site axonal GABAergic synaptic events on cerebellar interneuron activity.
Description: de San Martin, Javier Zorrilla, et al. Impact of single-site axonal GABAergic synaptic events on cerebellar interneuron activity. ''J Gen Physiol''. 2015 Dec; '''146''' (6):477-93
Updated: Sep 28, 2019
3D Image-Guided Automatic Pipette Positioning for Single Cell Experiments in vivo.
Description: Long, Brian, et al. 3D Image-Guided Automatic Pipette Positioning for Single Cell Experiments in vivo. ''Sci Rep''. 2015 Dec 22; '''5''': 18426
Updated: Sep 28, 2019
A Naturally-Derived Compound Schisandrin B Enhanced Light Sensation in the pde6c Zebrafish Model of Retinal Degeneration.
Description: Zhang, Liyun, et al. A Naturally-Derived Compound Schisandrin B Enhanced Light Sensation in the pde6c Zebrafish Model of Retinal Degeneration. ''PLoS One''. 2016; '''11''' (3):e0149663
Updated: Sep 28, 2019
Genetic and Environmental Control of Neurodevelopmental Robustness in Drosophila.
Description: Mellert, David J, et al. Genetic and Environmental Control of Neurodevelopmental Robustness in Drosophila. ''PLoS One''. 2016; '''11''' (5):e0155957
Updated: Sep 28, 2019
Mining biomedical images towards valuable information retrieval in biomedical and life sciences.
Description: Ahmed, Zeeshan, et al. Mining biomedical images towards valuable information retrieval in biomedical and life sciences. ''Database (Oxford)''. 2016; '''2016''':
Updated: Sep 28, 2019
TReMAP: Automatic 3D Neuron Reconstruction Based on Tracing, Reverse Mapping and Assembling of 2D Projections.
Description: Zhou, Zhi, et al. TReMAP: Automatic 3D Neuron Reconstruction Based on Tracing, Reverse Mapping and Assembling of 2D Projections. ''Neuroinformatics''. 2016 Jan; '''14''' (1):41-50
Updated: Sep 28, 2019
ACT-PRESTO: Rapid and consistent tissue clearing and labeling method for 3-dimensional (3D) imaging.
Description: Lee, Eunsoo, et al. ACT-PRESTO: Rapid and consistent tissue clearing and labeling method for 3-dimensional (3D) imaging. ''Sci Rep''. 2016 Jan 11; '''6''': 18631
Updated: Sep 28, 2019
Fuzzy-Logic Based Detection and Characterization of Junctions and Terminations in Fluorescence Microscopy Images of Neurons.
Description: Radojevic, Miroslav, et al. Fuzzy-Logic Based Detection and Characterization of Junctions and Terminations in Fluorescence Microscopy Images of Neurons. ''Neuroinformatics''. 2016 Apr; '''14''' (2):201-19
Updated: Sep 28, 2019
Optimizing the 3D-reconstruction technique for serial block-face scanning electron microscopy.
Description: Wernitznig, Stefan, et al. Optimizing the 3D-reconstruction technique for serial block-face scanning electron microscopy. ''J Neurosci Methods''. 2016 May 1; '''264''': 16-24
Updated: Sep 28, 2019
Postembryonic lineages of the Drosophila ventral nervous system: Neuroglian expression reveals the adult hemilineage associated fiber tracts in the adult thoracic neuromeres.
Description: Shepherd, David, et al. Postembryonic lineages of the Drosophila ventral nervous system: Neuroglian expression reveals the adult hemilineage associated fiber tracts in the adult thoracic neuromeres. ''J Comp Neurol''. 2016 Sep 1; '''524''' (13):2677-95
Updated: Sep 28, 2019
CLARITY-compatible lipophilic dyes for electrode marking and neuronal tracing.
Description: Jensen, Kristian H R, et al. CLARITY-compatible lipophilic dyes for electrode marking and neuronal tracing. ''Sci Rep''. 2016 Sep 6; '''6''': 32674
Updated: Sep 28, 2019
Identification, visualization and clonal analysis of intestinal stem cells in fish.
Description: Aghaallaei, Narges, et al. Identification, visualization and clonal analysis of intestinal stem cells in fish. ''Development''. 2016 Oct 1; '''143''' (19):3470-3480
Updated: Sep 28, 2019
Rivulet: 3D Neuron Morphology Tracing with Iterative Back-Tracking.
Description: Liu, Siqi, et al. Rivulet: 3D Neuron Morphology Tracing with Iterative Back-Tracking. ''Neuroinformatics''. 2016 Oct; '''14''' (4):387-401
Updated: Sep 28, 2019
Serotonergic Modulation Differentially Targets Distinct Network Elements within the Antennal Lobe of Drosophila melanogaster.
Description: Sizemore, Tyler R, et al. Serotonergic Modulation Differentially Targets Distinct Network Elements within the Antennal Lobe of Drosophila melanogaster. ''Sci Rep''. 2016 Nov 15; '''6''': 37119
Updated: Sep 28, 2019
Rac1/RhoA antagonism defines cell-to-cell heterogeneity during epidermal morphogenesis in nematodes.
Description: Martin, Emmanuel, et al. Rac1/RhoA antagonism defines cell-to-cell heterogeneity during epidermal morphogenesis in nematodes. ''J Cell Biol''. 2016 Nov 21; '''215''' (4):483-498
Updated: Sep 28, 2019
Reconstructing the brain: from image stacks to neuron synthesis.
Description: Shillcock, Julian C, et al. Reconstructing the brain: from image stacks to neuron synthesis. ''Brain Inform''. 2016 Dec; '''3''' (4):205-209
Updated: Sep 28, 2019
Visual projection neurons in the Drosophila lobula link feature detection to distinct behavioral programs.
Description: Wu, Ming, et al. Visual projection neurons in the Drosophila lobula link feature detection to distinct behavioral programs. ''Elife''. 2016 Dec 28; '''5''':
Updated: Sep 28, 2019
Fuzzy-based propagation of prior knowledge to improve large-scale image analysis pipelines.
Description: Stegmaier, Johannes, et al. Fuzzy-based propagation of prior knowledge to improve large-scale image analysis pipelines. ''PLoS One''. 2017; '''12''' (11):e0187535
Updated: Sep 28, 2019
Keto-polymethines: a versatile class of dyes with outstanding spectroscopic properties for in cellulo and in vivo two-photon microscopy imaging.
Description: Pascal, Simon, et al. Keto-polymethines: a versatile class of dyes with outstanding spectroscopic properties for in cellulo and in vivo two-photon microscopy imaging. ''Chem Sci''. 2017 Jan 1; '''8''' (1):381-394
Updated: Sep 28, 2019
N3DFix: an Algorithm for Automatic Removal of Swelling Artifacts in Neuronal Reconstructions.
Description: Conde-Sousa, Eduardo, et al. N3DFix: an Algorithm for Automatic Removal of Swelling Artifacts in Neuronal Reconstructions. ''Neuroinformatics''. 2017 Jan; '''15''' (1):5-12
Updated: Sep 28, 2019
TDat: An Efficient Platform for Processing Petabyte-Scale Whole-Brain Volumetric Images.
Description: Li, Yuxin, et al. TDat: An Efficient Platform for Processing Petabyte-Scale Whole-Brain Volumetric Images. ''Front Neural Circuits''. 2017; '''11''': 51
Updated: Sep 28, 2019
Reduced Inhibition within Layer IV of Sert Knockout Rat Barrel Cortex is Associated with Faster Sensory Integration.
Description: Miceli, Stephanie, et al. Reduced Inhibition within Layer IV of Sert Knockout Rat Barrel Cortex is Associated with Faster Sensory Integration. ''Cereb Cortex''. 2017 Feb 1; '''27''' (2):933-949
Updated: Sep 28, 2019
M-AMST: an automatic 3D neuron tracing method based on mean shift and adapted minimum spanning tree.
Description: Wan, Zhijiang, et al. M-AMST: an automatic 3D neuron tracing method based on mean shift and adapted minimum spanning tree. ''BMC Bioinformatics''. 2017 Mar 29; '''18''' (1):197
Updated: Sep 28, 2019
Ensemble Neuron Tracer for 3D Neuron Reconstruction.
Description: Wang, Ching-Wei, et al. Ensemble Neuron Tracer for 3D Neuron Reconstruction. ''Neuroinformatics''. 2017 Apr; '''15''' (2):185-198
Updated: Sep 28, 2019
A robot for high yield electrophysiology and morphology of single neurons in vivo.
Description: Li, Lu, et al. A robot for high yield electrophysiology and morphology of single neurons in vivo. ''Nat Commun''. 2017 Jun 1; '''8''': 15604
Updated: Sep 28, 2019
Feature Integration Drives Probabilistic Behavior in the Drosophila Escape Response.
Description: von Reyn, Catherine R, et al. Feature Integration Drives Probabilistic Behavior in the Drosophila Escape Response. ''Neuron''. 2017 Jun 21; '''94''' (6):1190-1204.e6
Updated: Sep 28, 2019
microRNA dependent and independent deregulation of long non-coding RNAs by an oncogenic herpesvirus.
Description: Sethuraman, Sunantha, et al. microRNA dependent and independent deregulation of long non-coding RNAs by an oncogenic herpesvirus. ''PLoS Pathog''. 2017 Jul; '''13''' (7):e1006508
Updated: Sep 28, 2019
SmartScope2: Simultaneous Imaging and Reconstruction of Neuronal Morphology.
Description: Long, Brian, et al. SmartScope2: Simultaneous Imaging and Reconstruction of Neuronal Morphology. ''Sci Rep''. 2017 Aug 24; '''7''' (1):9325
Updated: Sep 28, 2019
Fast assembling of neuron fragments in serial 3D sections.
Description: Chen, Hanbo, et al. Fast assembling of neuron fragments in serial 3D sections. ''Brain Inform''. 2017 Sep; '''4''' (3):183-186
Updated: Sep 28, 2019
Automatic and adaptive heterogeneous refractive index compensation for light-sheet microscopy.
Description: Ryan, Duncan P, et al. Automatic and adaptive heterogeneous refractive index compensation for light-sheet microscopy. ''Nat Commun''. 2017 Sep 20; '''8''' (1):612
Updated: Sep 28, 2019
Alpha 7 nicotinic receptors attenuate neurite development through calcium activation of calpain at the growth cone.
Description: King, Justin R, et al. Alpha 7 nicotinic receptors attenuate neurite development through calcium activation of calpain at the growth cone. ''PLoS One''. 2018; '''13''' (5):e0197247
Updated: Sep 28, 2019
A Segmentation Scheme for Complex Neuronal Arbors and Application to Vibration Sensitive Neurons in the Honeybee Brain.
Description: Ikeno, Hidetoshi, et al. A Segmentation Scheme for Complex Neuronal Arbors and Application to Vibration Sensitive Neurons in the Honeybee Brain. ''Front Neuroinform''. 2018; '''12''': 61
Updated: Sep 28, 2019
Mechanical Effects of Cellulose, Xyloglucan, and Pectins on Stomatal Guard Cells of Arabidopsis thaliana.
Description: Yi, Hojae, et al. Mechanical Effects of Cellulose, Xyloglucan, and Pectins on Stomatal Guard Cells of Arabidopsis thaliana. ''Front Plant Sci''. 2018; '''9''': 1566
Updated: Sep 28, 2019
The Medial Ventrothalamic Circuitry: Cells Implicated in a Bimodal Network.
Description: Vega-Zuniga, Tomas, et al. The Medial Ventrothalamic Circuitry: Cells Implicated in a Bimodal Network. ''Front Neural Circuits''. 2018; '''12''': 9
Updated: Sep 28, 2019
Vascular Smooth Muscle Contractile Function Declines With Age in Skeletal Muscle Feed Arteries.
Description: Seawright, John W, et al. Vascular Smooth Muscle Contractile Function Declines With Age in Skeletal Muscle Feed Arteries. ''Front Physiol''. 2018; '''9''': 856
Updated: Sep 28, 2019
Microglial Ramification, Surveillance, and Interleukin-1beta Release Are Regulated by the Two-Pore Domain K(+) Channel THIK-1.
Description: Madry, Christian, et al. Microglial Ramification, Surveillance, and Interleukin-1beta Release Are Regulated by the Two-Pore Domain K(+) Channel THIK-1. ''Neuron''. 2018 Jan 17; '''97''' (2):299-312.e6
Updated: Sep 28, 2019
Role of the visual experience-dependent nascent proteome in neuronal plasticity.
Description: Liu, Han-Hsuan, et al. Role of the visual experience-dependent nascent proteome in neuronal plasticity. ''Elife''. 2018 Feb 7; '''7''':
Updated: Sep 28, 2019
Systematic generation of biophysically detailed models for diverse cortical neuron types.
Description: Gouwens, Nathan W, et al. Systematic generation of biophysically detailed models for diverse cortical neuron types. ''Nat Commun''. 2018 Feb 19; '''9''' (1):710
Updated: Sep 28, 2019
CLARITY for High-resolution Imaging and Quantification of Vasculature in the Whole Mouse Brain.
Description: Zhang, Lin-Yuan, et al. CLARITY for High-resolution Imaging and Quantification of Vasculature in the Whole Mouse Brain. ''Aging Dis''. 2018 Apr; '''9''' (2):262-272
Updated: Sep 28, 2019
Embryonic and postnatal neurogenesis produce functionally distinct subclasses of dopaminergic neuron.
Description: Galliano, Elisa, et al. Embryonic and postnatal neurogenesis produce functionally distinct subclasses of dopaminergic neuron. ''Elife''. 2018 Apr 20; '''7''':
Updated: Sep 28, 2019
Imaging the ovary.
Description: Feng, Yi, et al. Imaging the ovary. ''Reprod Biomed Online''. 2018 May; '''36''' (5):584-593
Updated: Sep 28, 2019
Neuroanatomical details of the lateral neurons of Drosophila melanogaster support their functional role in the circadian system.
Description: Schubert, Frank K, et al. Neuroanatomical details of the lateral neurons of Drosophila melanogaster support their functional role in the circadian system. ''J Comp Neurol''. 2018 May 1; '''526''' (7):1209-1231
Updated: Sep 28, 2019
DeepNeuron: an open deep learning toolbox for neuron tracing.
Description: Zhou, Zhi, et al. DeepNeuron: an open deep learning toolbox for neuron tracing. ''Brain Inform''. 2018 Jun 6; '''5''' (2):3
Updated: Sep 28, 2019
Systematic Analysis of Transmitter Coexpression Reveals Organizing Principles of Local Interneuron Heterogeneity.
Description: Lizbinski, Kristyn M, et al. Systematic Analysis of Transmitter Coexpression Reveals Organizing Principles of Local Interneuron Heterogeneity. ''eNeuro''. 2018 Sep-Oct; '''5''' (5):
Updated: Sep 28, 2019
Disentangling astroglial physiology with a realistic cell model in silico.
Description: Savtchenko, Leonid P, et al. Disentangling astroglial physiology with a realistic cell model in silico. ''Nat Commun''. 2018 Sep 3; '''9''' (1):3554
Updated: Sep 28, 2019
h-Channels Contribute to Divergent Intrinsic Membrane Properties of Supragranular Pyramidal Neurons in Human versus Mouse Cerebral Cortex.
Description: Kalmbach, Brian E, et al. h-Channels Contribute to Divergent Intrinsic Membrane Properties of Supragranular Pyramidal Neurons in Human versus Mouse Cerebral Cortex. ''Neuron''. 2018 Dec 5; '''100''' (5):1194-1208.e5
Updated: Sep 28, 2019
A Novel Type of Neuron Within the Dorsal Striatum.
Description: Mao, Miaomiao, et al. A Novel Type of Neuron Within the Dorsal Striatum. ''Front Neural Circuits''. 2019; '''13''': 32
Updated: Sep 28, 2019
Leptin-deficient mice have altered three-dimensional growth plate histomorphometry.
Description: Hung, Jun, et al. Leptin-deficient mice have altered three-dimensional growth plate histomorphometry. ''Diabetol Metab Syndr''. 2019; '''11''': 8
Updated: Sep 28, 2019
Comparisons between the ON- and OFF-edge motion pathways in the Drosophila brain.
Description: Shinomiya, Kazunori, et al. Comparisons between the ON- and OFF-edge motion pathways in the Drosophila brain. ''Elife''. 2019 Jan 9; '''8''':
Updated: Sep 28, 2019
Stereotyped terminal axon branching of leg motor neurons mediated by IgSF proteins DIP-alpha and Dpr10.
Description: Venkatasubramanian, Lalanti, et al. Stereotyped terminal axon branching of leg motor neurons mediated by IgSF proteins DIP-alpha and Dpr10. ''Elife''. 2019 Feb 4; '''8''':
Updated: Sep 28, 2019
Multi-sample SPIM image acquisition, processing and analysis of vascular growth in zebrafish.
Description: Daetwyler, Stephan, et al. Multi-sample SPIM image acquisition, processing and analysis of vascular growth in zebrafish. ''Development''. 2019 Mar 21; '''146''' (6):
Updated: Sep 28, 2019
FMST: an Automatic Neuron Tracing Method Based on Fast Marching and Minimum Spanning Tree.
Description: Yang, Jian, et al. FMST: an Automatic Neuron Tracing Method Based on Fast Marching and Minimum Spanning Tree. ''Neuroinformatics''. 2019 Apr; '''17''' (2):185-196
Updated: Sep 28, 2019
Diverse synaptic and dendritic mechanisms of complex spike burst generation in hippocampal CA3 pyramidal cells.
Description: Raus Balind, Snezana, et al. Diverse synaptic and dendritic mechanisms of complex spike burst generation in hippocampal CA3 pyramidal cells. ''Nat Commun''. 2019 Apr 23; '''10''' (1):1859
Updated: Sep 28, 2019
Variability and directionality of inferior olive neuron dendrites revealed by detailed 3D characterization of an extensive morphological library.
Description: Vrieler, Nora, et al. Variability and directionality of inferior olive neuron dendrites revealed by detailed 3D characterization of an extensive morphological library. ''Brain Struct Funct''. 2019 May; '''224''' (4):1677-1695
Updated: Sep 28, 2019
PINK1 deficiency is associated with increased deficits of adult hippocampal neurogenesis and lowers the threshold for stress-induced depression in mice.
Description: Agnihotri, Sandeep K, et al. PINK1 deficiency is associated with increased deficits of adult hippocampal neurogenesis and lowers the threshold for stress-induced depression in mice. ''Behav Brain Res''. 2019 May 2; '''363''': 161-172
Updated: Sep 28, 2019
Automated Neuron Reconstruction from 3D Fluorescence Microscopy Images Using Sequential Monte Carlo Estimation.
Description: Radojevic, Miroslav, et al. Automated Neuron Reconstruction from 3D Fluorescence Microscopy Images Using Sequential Monte Carlo Estimation. ''Neuroinformatics''. 2019 Jul; '''17''' (3):423-442
Updated: Sep 28, 2019
In-Vivo Quantitative Image Analysis of Age-Related Morphological Changes of C. elegans Neurons Reveals a Correlation between Neurite Bending and Novel Neurite Outgrowths.
Description: Hess, Max, et al. In-Vivo Quantitative Image Analysis of Age-Related Morphological Changes of C. elegans Neurons Reveals a Correlation between Neurite Bending and Novel Neurite Outgrowths. ''eNeuro''. 2019 Jul/Aug; '''6''' (4):
Updated: Sep 28, 2019
TeraVR empowers precise reconstruction of complete 3-D neuronal morphology in the whole brain.
Description: Wang, Yimin, et al. TeraVR empowers precise reconstruction of complete 3-D neuronal morphology in the whole brain. ''Nat Commun''. 2019 Aug 2; '''10''' (1):3474
Updated: Sep 28, 2019
Adaptations during Maturation in an Identified Honeybee Interneuron Responsive to Waggle Dance Vibration Signals.
Description: Kumaraswamy, Ajayrama, et al. Adaptations during Maturation in an Identified Honeybee Interneuron Responsive to Waggle Dance Vibration Signals. ''eNeuro''. 2019 Sep/Oct; '''6''' (5):
Updated: Oct 12, 2019
A versatile microfluidic device for highly inclined thin illumination microscopy in the moss Physcomitrella patens.
Description: Kozgunova, Elena, et al. A versatile microfluidic device for highly inclined thin illumination microscopy in the moss Physcomitrella patens. ''Sci Rep''. 2019 Oct 23; '''9''' (1):15182
Updated: Nov 23, 2019
P2Y13 receptors regulate microglial morphology, surveillance, and resting levels of interleukin 1beta release.
Description: Kyrargyri, Vasiliki, et al. P2Y13 receptors regulate microglial morphology, surveillance, and resting levels of interleukin 1beta release. ''Glia''. 2020 Feb; '''68''' (2):328-344
Updated: Jan 11, 2020