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Volumn 13, Issue 4, 2015, Pages 487-499

BlastNeuron for Automated Comparison, Retrieval and Clustering of 3D Neuron Morphologies

Author keywords

Neuron comparison; Neuron morphology; Neuron reconstruction; Tree matching

Indexed keywords

ALGORITHM; ANIMAL; BIOLOGICAL MODEL; BRAIN; CLUSTER ANALYSIS; CYTOLOGY; DATABASE MANAGEMENT SYSTEM; HUMAN; NERVE CELL; NONLINEAR SYSTEM; PHYSIOLOGY; THREE DIMENSIONAL IMAGING;

EID: 84945459765     PISSN: 15392791     EISSN: None     Source Type: Journal    
DOI: 10.1007/s12021-015-9272-7     Document Type: Article
Times cited : (55)

References (39)
  • 1
    • 0025183708 scopus 로고
    • Basic local alignment search tool
    • COI: 1:CAS:528:DyaK3MXitVGmsA%3D%3D, PID: 2231712
    • Altschul, S. F., et al. (1990). Basic local alignment search tool. Journal of Molecular Biology, 215, 403–410.
    • (1990) Journal of Molecular Biology , vol.215 , pp. 403-410
    • Altschul, S.F.1
  • 3
    • 34548458204 scopus 로고    scopus 로고
    • NeuroMorpho.Org: a central resource for neuronal morphologies, The
    • COI: 1:CAS:528:DC%2BD2sXhtVaks7fF, PID: 17728438
    • Ascoli, G. A., Donohue, D. E., & Halavi, M. (2007). NeuroMorpho.Org: a central resource for neuronal morphologies, The. Journal of Neuroscience, 27, 9247–9251.
    • (2007) Journal of Neuroscience , vol.27 , pp. 9247-9251
    • Ascoli, G.A.1    Donohue, D.E.2    Halavi, M.3
  • 4
    • 80055042006 scopus 로고    scopus 로고
    • Basu, S., Condron, B., & Acton, S. T. (2011). Path2Path: Hierarchical path-based analysis for neuron matching. In Biomedical imaging: From nano to macro, 2011 I.E. international symposium on (pp. 996–999). IEEE
    • Basu, S., Condron, B., & Acton, S. T. (2011). Path2Path: Hierarchical path-based analysis for neuron matching. In Biomedical imaging: From nano to macro, 2011 I.E. international symposium on (pp. 996–999). IEEE.
  • 6
    • 18444373554 scopus 로고    scopus 로고
    • A survey on tree edit distance and related problems
    • Bille, P. (2005). A survey on tree edit distance and related problems. Theoretical Computer Science, 337, 217–239.
    • (2005) Theoretical Computer Science , vol.337 , pp. 217-239
    • Bille, P.1
  • 7
    • 33745177790 scopus 로고    scopus 로고
    • Feature-based similarity search in 3D object databases
    • Bustos, B., et al. (2005). Feature-based similarity search in 3D object databases. ACM Computing Surveys, 37, 345–387.
    • (2005) ACM Computing Surveys , vol.37 , pp. 345-387
    • Bustos, B.1
  • 8
    • 0032192309 scopus 로고    scopus 로고
    • An on-line archive of reconstructed hippocampal neurons
    • COI: 1:STN:280:DyaK1M%2FjvFSktg%3D%3D, PID: 9821633
    • Cannon, R. C., et al. (1998). An on-line archive of reconstructed hippocampal neurons. Journal of Neuroscience Methods, 84, 49–54.
    • (1998) Journal of Neuroscience Methods , vol.84 , pp. 49-54
    • Cannon, R.C.1
  • 10
    • 79151480913 scopus 로고    scopus 로고
    • Three-dimensional reconstruction of brain-wide wiring networks in Drosophila at single-cell resolution
    • COI: 1:CAS:528:DC%2BC3MXkt1Sksg%3D%3D, PID: 21129968
    • Chiang, A. S., Lin, C. Y., Chuang, C. C., Chang, H. M., Hsieh, C. H., Yeh, C. W., & Hwang, J. K. (2011). Three-dimensional reconstruction of brain-wide wiring networks in Drosophila at single-cell resolution. Current Biology, 21(1), 1–11.
    • (2011) Current Biology , vol.21 , Issue.1 , pp. 1-11
    • Chiang, A.S.1    Lin, C.Y.2    Chuang, C.C.3    Chang, H.M.4    Hsieh, C.H.5    Yeh, C.W.6    Hwang, J.K.7
  • 11
    • 77957017889 scopus 로고    scopus 로고
    • Semi-automated reconstruction of neural circuits using electron microscopy
    • COI: 1:CAS:528:DC%2BC3cXht1WlsL%2FJ, PID: 20833533
    • Chklovskii, D. B., Vitaladevuni, S., & Scheffer, L. K. (2010). Semi-automated reconstruction of neural circuits using electron microscopy. Current Opinion in Neurobiology, 20, 667–675.
    • (2010) Current Opinion in Neurobiology , vol.20 , pp. 667-675
    • Chklovskii, D.B.1    Vitaladevuni, S.2    Scheffer, L.K.3
  • 12
    • 84945446884 scopus 로고    scopus 로고
    • NBLAST: Rapid, sensitive comparison of neuronal structure and construction of neuron family databases. bioRxiv
    • Costa, M., et al. (2014). NBLAST: Rapid, sensitive comparison of neuronal structure and construction of neuron family databases. bioRxiv, 006346.
    • (2014) 006346
    • Costa, M.1
  • 13
    • 14044262855 scopus 로고    scopus 로고
    • Serial block-face scanning electron microscopy to reconstruct three-dimensional tissue nanostructure
    • PID: 15514700
    • Denk, W., & Horstmann, H. (2004). Serial block-face scanning electron microscopy to reconstruct three-dimensional tissue nanostructure. PLoS Biology, 2, e329.
    • (2004) PLoS Biology , vol.2
    • Denk, W.1    Horstmann, H.2
  • 14
    • 33845781026 scopus 로고    scopus 로고
    • Correlation between axonal morphologies and synaptic input kinetics of interneurons from mouse visual cortex
    • PID: 16467567
    • Dumitriu, D., Cossart, R., Huang, J., & Yuste, R. (2007). Correlation between axonal morphologies and synaptic input kinetics of interneurons from mouse visual cortex. Cerebral Cortex, 17(1), 81–91.
    • (2007) Cerebral Cortex , vol.17 , Issue.1 , pp. 81-91
    • Dumitriu, D.1    Cossart, R.2    Huang, J.3    Yuste, R.4
  • 15
    • 84904743784 scopus 로고    scopus 로고
    • Structure-based neuron retrieval across Drosophila brains
    • PID: 24446234
    • Ganglberger, F., et al. (2014). Structure-based neuron retrieval across Drosophila brains. Neuroinformatics, 12, 423–434.
    • (2014) Neuroinformatics , vol.12 , pp. 423-434
    • Ganglberger, F.1
  • 16
    • 84945474704 scopus 로고    scopus 로고
    • Gillette, T.A., & Ascoli, G.A. (2015). Topological characterization of neuronal arbor morphology via sequence representation. I. Motif analysis (in press)
    • Gillette, T.A., & Ascoli, G.A. (2015). Topological characterization of neuronal arbor morphology via sequence representation. I. Motif analysis (in press).
  • 17
    • 84945492455 scopus 로고    scopus 로고
    • Gillette, T.A., Hosseini, P., & Ascoli, G.A. (2015). Topological characterization of neuronal arbor morphology via sequence representation. II. Global alignment (in press)
    • Gillette, T.A., Hosseini, P., & Ascoli, G.A. (2015). Topological characterization of neuronal arbor morphology via sequence representation. II. Global alignment (in press).
  • 18
    • 70449717240 scopus 로고    scopus 로고
    • The tree-edit-distance, a measure for quantifying neuronal morphology
    • PID: 19475518
    • Heumann, H., & Wittum, G. (2009). The tree-edit-distance, a measure for quantifying neuronal morphology. Neuroinformatics, 7(3), 179–190.
    • (2009) Neuroinformatics , vol.7 , Issue.3 , pp. 179-190
    • Heumann, H.1    Wittum, G.2
  • 19
    • 84937655864 scopus 로고
    • Visual-pattern recognition by moment invariants. IRE Transactions on Information Theory 8
    • Hu, M. (1962). Visual-pattern recognition by moment invariants. IRE Transactions on Information Theory 8, 179-&.
    • (1962) 179-&
    • Hu, M.1
  • 21
    • 33947280630 scopus 로고    scopus 로고
    • Comprehensive maps of Drosophila higher olfactory centers: spatially segregated fruit and pheromone representation
    • COI: 1:CAS:528:DC%2BD2sXkslGms7c%3D, PID: 17382886
    • Jefferis, G. S., et al. (2007). Comprehensive maps of Drosophila higher olfactory centers: spatially segregated fruit and pheromone representation. Cell, 128, 1187–1203.
    • (2007) Cell , vol.128 , pp. 1187-1203
    • Jefferis, G.S.1
  • 22
    • 70449730644 scopus 로고    scopus 로고
    • NETMORPH: a framework for the stochastic generation of large scale neuronal networks with realistic neuron morphologies
    • PID: 19672726
    • Koene, R. A., et al. (2009). NETMORPH: a framework for the stochastic generation of large scale neuronal networks with realistic neuron morphologies. Neuroinformatics, 7, 195–210.
    • (2009) Neuroinformatics , vol.7 , pp. 195-210
    • Koene, R.A.1
  • 23
    • 0024754194 scopus 로고
    • 3-D moment forms - their construction and application to object identification and positioning
    • Lo, C. H., & Don, H. S. (1989). 3-D moment forms - their construction and application to object identification and positioning. IEEE Transactions on Pattern Analysis, 11, 1053–1064.
    • (1989) IEEE Transactions on Pattern Analysis , vol.11 , pp. 1053-1064
    • Lo, C.H.1    Don, H.S.2
  • 24
    • 84872864237 scopus 로고    scopus 로고
    • NetMets: software for quantifying and visualizing errors in biological network segmentation
    • PID: 22607549
    • Mayerich, D., et al. (2012). NetMets: software for quantifying and visualizing errors in biological network segmentation. BMC Bioinformatics, 13(Suppl 8), S7.
    • (2012) BMC Bioinformatics , vol.13 , pp. S7
    • Mayerich, D.1
  • 25
    • 84894116906 scopus 로고    scopus 로고
    • Rapid reconstruction of 3D neuronal morphology from light microscopy images with augmented rayburst sampling
    • PID: 24391966
    • Ming, X., et al. (2013). Rapid reconstruction of 3D neuronal morphology from light microscopy images with augmented rayburst sampling. PLoS One, 8, e84557.
    • (2013) PLoS One , vol.8
    • Ming, X.1
  • 26
    • 77950679704 scopus 로고    scopus 로고
    • V3D enables real-time 3D visualization and quantitative analysis of large-scale biological image data sets
    • COI: 1:CAS:528:DC%2BC3cXjt1Ogtb8%3D, PID: 20231818
    • Peng, H., et al. (2010). V3D enables real-time 3D visualization and quantitative analysis of large-scale biological image data sets. Nature Biotechnology, 28, 348–353.
    • (2010) Nature Biotechnology , vol.28 , pp. 348-353
    • Peng, H.1
  • 27
    • 79957877503 scopus 로고    scopus 로고
    • BrainAligner: 3D registration atlases of Drosophila brains
    • COI: 1:CAS:528:DC%2BC3MXlsVSiurs%3D, PID: 21532582
    • Peng, H., Chung, P., Long, F., Qu, L., Jenett, A., Seeds, A. M., & Simpson, J. H. (2011). BrainAligner: 3D registration atlases of Drosophila brains. Nature Methods, 8(6), 493–498.
    • (2011) Nature Methods , vol.8 , Issue.6 , pp. 493-498
    • Peng, H.1    Chung, P.2    Long, F.3    Qu, L.4    Jenett, A.5    Seeds, A.M.6    Simpson, J.H.7
  • 28
    • 84884919369 scopus 로고    scopus 로고
    • Automated image computing reshapes computational neuroscience
    • PID: 24090217
    • Peng, H., Roysam, B., & Ascoli, G. A. (2013). Automated image computing reshapes computational neuroscience. BMC Bioinformatics, 14(1), 293.
    • (2013) BMC Bioinformatics , vol.14 , Issue.1 , pp. 293
    • Peng, H.1    Roysam, B.2    Ascoli, G.A.3
  • 29
    • 84891676743 scopus 로고    scopus 로고
    • Extensible visualization and analysis for multidimensional images using Vaa3D
    • COI: 1:CAS:528:DC%2BC2cXls1Snurs%3D, PID: 24385149
    • Peng, H., Bria, A., Zhou, Z., Iannello, G., & Long, F. (2014). Extensible visualization and analysis for multidimensional images using Vaa3D. Nature Protocols, 9(1), 193–208.
    • (2014) Nature Protocols , vol.9 , Issue.1 , pp. 193-208
    • Peng, H.1    Bria, A.2    Zhou, Z.3    Iannello, G.4    Long, F.5
  • 30
    • 84931008577 scopus 로고    scopus 로고
    • From DIADEM to BigNeuron, NeuroInformatics
    • Peng, H., Meijering, E., & Ascoli, G. (2015) From DIADEM to BigNeuron. NeuroInformatics. doi:10.1007/s12021-015-9270-9.
    • (2015) & Ascoli, G
    • Peng, H.1    Meijering, E.2
  • 31
    • 34248995532 scopus 로고    scopus 로고
    • Schnabel, R., Wahl, R., & Klein, R. (2007). Efficient RANSAC for point-cloud shape detection. In Computer graphics forum (26(2), 214–226). Blackwell Publishing Ltd
    • Schnabel, R., Wahl, R., & Klein, R. (2007). Efficient RANSAC for point-cloud shape detection. In Computer graphics forum (26(2), 214–226). Blackwell Publishing Ltd.
  • 32
    • 43149098519 scopus 로고    scopus 로고
    • L-Measure: a web-accessible tool for the analysis, comparison and search of digital reconstructions of neuronal morphologies
    • COI: 1:CAS:528:DC%2BD1cXltlSgsLk%3D, PID: 18451794
    • Scorcioni, R., Polavaram, S., & Ascoli, G. A. (2008). L-Measure: a web-accessible tool for the analysis, comparison and search of digital reconstructions of neuronal morphologies. Nature Protocols, 3(5), 866–876.
    • (2008) Nature Protocols , vol.3 , Issue.5 , pp. 866-876
    • Scorcioni, R.1    Polavaram, S.2    Ascoli, G.A.3
  • 34
    • 29144483584 scopus 로고    scopus 로고
    • Matching and anatomical labeling of human airway tree
    • PID: 16353371
    • Tschirren, J., et al. (2005). Matching and anatomical labeling of human airway tree. IEEE Transactions on Medical Imaging, 24, 1540–1547.
    • (2005) IEEE Transactions on Medical Imaging , vol.24 , pp. 1540-1547
    • Tschirren, J.1
  • 35
    • 79958104510 scopus 로고    scopus 로고
    • A broadly applicable 3-D neuron tracing method based on open-curve snake
    • PID: 21399937
    • Wang, Y., et al. (2011). A broadly applicable 3-D neuron tracing method based on open-curve snake. Neuroinformatics, 9, 193–217.
    • (2011) Neuroinformatics , vol.9 , pp. 193-217
    • Wang, Y.1
  • 36
    • 84878276723 scopus 로고    scopus 로고
    • APP2: automatic tracing of 3D neuron morphology based on hierarchical pruning of a gray-weighted image distance-tree
    • COI: 1:CAS:528:DC%2BC3sXotlCgt78%3D, PID: 23603332
    • Xiao, H., & Peng, H. (2013). APP2: automatic tracing of 3D neuron morphology based on hierarchical pruning of a gray-weighted image distance-tree. Bioinformatics, 29(11), 1448–1454.
    • (2013) Bioinformatics , vol.29 , Issue.11 , pp. 1448-1454
    • Xiao, H.1    Peng, H.2
  • 37
    • 0024889169 scopus 로고
    • Simple fast algorithms for the editing distance between trees and related problems
    • Zhang, K., & Shasha, D. (1989). Simple fast algorithms for the editing distance between trees and related problems. SIAM Journal on Computing, 18(6), 1245–1262.
    • (1989) SIAM Journal on Computing , vol.18 , Issue.6 , pp. 1245-1262
    • Zhang, K.1    Shasha, D.2
  • 38
    • 79958161539 scopus 로고    scopus 로고
    • Automated reconstruction of neuronal morphology based on local geometrical and global structural models
    • PID: 21547564
    • Zhao, T., Xie, J., Amat, F., Clack, N., Ahammad, P., Peng, H., & Myers, E. (2011). Automated reconstruction of neuronal morphology based on local geometrical and global structural models. Neuroinformatics, 9(2–3), 247–261.
    • (2011) Neuroinformatics , vol.9 , Issue.2-3 , pp. 247-261
    • Zhao, T.1    Xie, J.2    Amat, F.3    Clack, N.4    Ahammad, P.5    Peng, H.6    Myers, E.7
  • 39
    • 77952867806 scopus 로고    scopus 로고
    • Consensus skeleton for non-rigid space-time registration
    • Zheng, Q., et al. (2010). Consensus skeleton for non-rigid space-time registration. Computer Graphics Forum, 29, 635–644.
    • (2010) Computer Graphics Forum , vol.29 , pp. 635-644
    • Zheng, Q.1


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