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Nat Commun. 2014 Jul 11;5:4342. doi: 10.1038/ncomms5342.

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

Author information

1
1] Janelia Farm Research Campus, Howard Hughes Medical Institute, Ashburn, Virginia 20147, USA [2] Allen Institute for Brain Science, 551 North 34th Street, Suite 200, Seattle, Washington 98103, USA.
2
1] Janelia Farm Research Campus, Howard Hughes Medical Institute, Ashburn, Virginia 20147, USA [2].
3
1] Integrated Research Centre, University Campus Bio-Medico of Rome, 00128 Rome, Italy [2] Department of Electrical and Information Engineering, University of Cassino and L.M., 03043 Cassino, Italy [3].
4
Janelia Farm Research Campus, Howard Hughes Medical Institute, Ashburn, Virginia 20147, USA.
5
Allen Institute for Brain Science, 551 North 34th Street, Suite 200, Seattle, Washington 98103, USA.
6
1] Department of Physiology, Development and Neuroscience, University of Cambridge, Cambridge CB2 3EG, UK [2] Program in Sensory Physiology and Behavior, Marine Biological Laboratory, Woods Hole, Massachusetts 02543, USA.
7
1] Department of Pulmonary Medicine, M. D. Anderson Cancer Center, Houston, Texas 77030, USA [2] Department of Biochemistry, Stanford University School of Medicine, Stanford, California 94305, USA.
8
1] Department of Molecular and Cellular Physiology, Stanford University School of Medicine, Stanford, California 94305, USA [2] Circuit Therapeutics, Inc., Menlo Park, California 94025, USA.
9
1] Department of Molecular and Cellular Physiology, Stanford University School of Medicine, Stanford, California 94305, USA [2] New York University Institute of Neuroscience, New York University, New York, New York 10016, USA.
10
Krasnow Institute for Advanced Study, George Mason University, Fairfax, Virginia 22030, USA.
11
Integrated Research Centre, University Campus Bio-Medico of Rome, 00128 Rome, Italy.
12
1] Janelia Farm Research Campus, Howard Hughes Medical Institute, Ashburn, Virginia 20147, USA [2] Max Planck Institute of Molecular Cell Biology and Genetics, Dresden, Germany.
13
1] Janelia Farm Research Campus, Howard Hughes Medical Institute, Ashburn, Virginia 20147, USA [2] Allen Institute for Brain Science, 551 North 34th Street, Suite 200, Seattle, Washington 98103, USA [3] BioImage, L.L.C., Bellevue, Washington 98005, USA.

Abstract

Three-dimensional (3D) bioimaging, visualization and data analysis are in strong need of powerful 3D exploration techniques. We develop virtual finger (VF) to generate 3D curves, points and regions-of-interest in the 3D space of a volumetric image with a single finger operation, such as a computer mouse stroke, or click or zoom from the 2D-projection plane of an image as visualized with a computer. VF provides efficient methods for acquisition, visualization and analysis of 3D images for roundworm, fruitfly, dragonfly, mouse, rat and human. Specifically, VF enables instant 3D optical zoom-in imaging, 3D free-form optical microsurgery, and 3D visualization and annotation of terabytes of whole-brain image volumes. VF also leads to orders of magnitude better efficiency of automated 3D reconstruction of neurons and similar biostructures over our previous systems. We use VF to generate from images of 1,107 Drosophila GAL4 lines a projectome of a Drosophila brain.

PMID:
25014658
PMCID:
PMC4104457
DOI:
10.1038/ncomms5342
[Indexed for MEDLINE]
Free PMC Article

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