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Volumn 9, Issue 2-3, 2011, Pages 193-217

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

Author keywords

Automated neuron tracing; Axon reconstruction; Gradient vector flow; Open curve snake; Radius estimation

Indexed keywords

ALGORITHM; ANIMAL; ARTICLE; COMPUTER PROGRAM; CYTOLOGY; IMAGE PROCESSING; METHODOLOGY; MOUSE; NERVE CELL; NEUROANATOMICAL TRACT TRACING; PHYSIOLOGY; RAT; STANDARD; THREE DIMENSIONAL IMAGING;

EID: 79958104510     PISSN: 15392791     EISSN: None     Source Type: Journal    
DOI: 10.1007/s12021-011-9110-5     Document Type: Article
Times cited : (180)

References (46)
  • 3
    • 0036462551 scopus 로고    scopus 로고
    • Initialization, noise, singularities, and scale in height ridge traversal for tubular object centerline extraction
    • DOI 10.1109/42.993126, PII S0278006202029336
    • SR Aylward E Bullitt 2002 Initialization, noise, singularities, and scale in height ridge traversal for tubular object centerline extraction IEEE Trans Medical Imaging 21 2 61 75 10.1109/42.993126 (Pubitemid 34466421)
    • (2002) IEEE Transactions on Medical Imaging , vol.21 , Issue.2 , pp. 61-75
    • Aylward, S.R.1    Bullitt, E.2
  • 4
    • 54249138766 scopus 로고    scopus 로고
    • A Novel Approach for Detection of Tubular Objects and Its Application to Medical Image Analysis
    • Bauer, C., Bischof, H. (2008). A Novel Approach for Detection of Tubular Objects and Its Application to Medical Image Analysis. Proceedings of the 30th DAGM symposium on Pattern Recognition, 163-172.
    • (2008) Proceedings of the 30th DAGM Symposium on Pattern Recognition , pp. 163-172
    • Bauer, C.1    Bischof, H.2
  • 5
    • 83155181287 scopus 로고    scopus 로고
    • Tubular Structure segmentation based on minimal path method and anisotropic enhancement
    • Benmansour, F., Cohen, L. D. (2010). Tubular Structure segmentation based on minimal path method and anisotropic enhancement. International Journal of Computer Vision, 1-19.
    • (2010) International Journal of Computer Vision , pp. 1-19
    • Benmansour, F.1    Cohen, L.D.2
  • 7
    • 33748327078 scopus 로고    scopus 로고
    • Repulsive force based snake model to segment and track neuronal axons in 3D microscopy image stacks
    • DOI 10.1016/j.neuroimage.2006.05.036, PII S1053811906005787
    • H Cai X Xu J Lu J Lichtman SP Yung ST Wong 2006 Repulsive force based snake model to segment and track neuronal axons in 3-D microscopy image stacks Neuroimage 32 4 1608 1620 16861006 10.1016/j.neuroimage.2006.05.036 (Pubitemid 44332286)
    • (2006) NeuroImage , vol.32 , Issue.4 , pp. 1608-1620
    • Cai, H.1    Xu, X.2    Lu, J.3    Lichtman, J.W.4    Yung, S.P.5    Wong, S.T.C.6
  • 8
    • 54249159267 scopus 로고    scopus 로고
    • Using nonlinear diffusion and mean shift to detect and connect cross-sections of axons in 3-D optical microscopy images
    • 18440853 10.1016/j.media.2008.03.002
    • H Cai X Xu J Lu J Lichtman SP Yung ST Wong 2008 Using nonlinear diffusion and mean shift to detect and connect cross-sections of axons in 3-D optical microscopy images Medical Image Analysis 12 6 666 75 18440853 10.1016/j.media.2008.03.002
    • (2008) Medical Image Analysis , vol.12 , Issue.6 , pp. 666-75
    • Cai, H.1    Xu, X.2    Lu, J.3    Lichtman, J.4    Yung, S.P.5    Wong, S.T.6
  • 9
    • 0031213363 scopus 로고    scopus 로고
    • Global minimum for active contour models: A minimal path approach
    • Cohen, LD., Kimmel R. (1997). Global minimum for active contour models: a minimal path approach. International Journal of Computer Vision, 24, 57-78. (Pubitemid 127716437)
    • (1997) International Journal of Computer Vision , vol.24 , Issue.1 , pp. 57-78
    • Cohen, L.D.1    Kimmel, R.2
  • 10
    • 0028289552 scopus 로고
    • Automated tracing and volume measurements of neurons from 3-D confocal fluorescence microscopy data
    • AR Cohen B Roysam JN Turner 1994 Automated tracing and volume measurements of neurons from 3-D confocal fluorescence microscopy data Journal de Microscopie 173 2 103 114 1:STN:280:DyaK2c3itlKkuw%3D%3D (Pubitemid 24178629)
    • (1994) Journal of Microscopy , vol.173 , Issue.2 , pp. 103-114
    • Cohen, A.R.1    Roysam, B.2    Turner, J.N.3
  • 11
    • 34147120474 scopus 로고
    • A note on two problems in connexion with graphs
    • 10.1007/BF01386390
    • EW Dijkstra 1959 A note on two problems in connexion with graphs Numerische Mathematik 1 269 271 10.1007/BF01386390
    • (1959) Numerische Mathematik , vol.1 , pp. 269-271
    • Dijkstra, E.W.1
  • 12
    • 17144363197 scopus 로고    scopus 로고
    • Reconstruct: A free editor for serial section microscopy
    • DOI 10.1111/j.1365-2818.2005.01466.x
    • JC Fiala 2005 Reconstruct: a free editor for serial section microscopy Journal of Microscopy 218 52 61 15817063 10.1111/j.1365-2818.2005.01466.x 1:STN:280:DC%2BD2M7osV2msQ%3D%3D (Pubitemid 40524168)
    • (2005) Journal of Microscopy , vol.218 , Issue.1 , pp. 52-61
    • Fiala, J.C.1
  • 13
  • 16
    • 0345255182 scopus 로고    scopus 로고
    • Segmenting 3-D branching tubular structures using cores
    • Y Fridman SM Pizer S Aylward E Bullitt 2003 Segmenting 3-D branching tubular structures using cores MICCAI 2003 570 577
    • (2003) MICCAI , vol.2003 , pp. 570-577
    • Fridman, Y.1    Pizer, S.M.2    Aylward, S.3    Bullitt, E.4
  • 18
    • 77957922500 scopus 로고    scopus 로고
    • VascuSynth: Simulating vascular trees for generating volumetric image data with ground-truth segmentation and tree analysis
    • 20656456 10.1016/j.compmedimag.2010.06.002
    • G Hamarneh P Jassi 2010 VascuSynth: simulating vascular trees for generating volumetric image data with ground-truth segmentation and tree analysis Computerized Medical Imaging and Graphics 34 8 605 16 20656456 10.1016/j.compmedimag.2010.06.002
    • (2010) Computerized Medical Imaging and Graphics , vol.34 , Issue.8 , pp. 605-16
    • Hamarneh, G.1    Jassi, P.2
  • 24
    • 66249148685 scopus 로고    scopus 로고
    • Semi-automated reconstruction of neural processes from large numbers of fluorescence images
    • 19479070 10.1371/journal.pone.0005655
    • J Lu JC Fiala JW Lichtman 2009 Semi-automated reconstruction of neural processes from large numbers of fluorescence images PLoS ONE 4 5 e5655 19479070 10.1371/journal.pone.0005655
    • (2009) PLoS ONE , vol.4 , Issue.5 , pp. 5655
    • Lu, J.1    Fiala, J.C.2    Lichtman, J.W.3
  • 26
    • 77956512189 scopus 로고    scopus 로고
    • Teams battle for neuron prize
    • 20829767 10.1038/467143a 1:CAS:528:DC%2BC3cXhtFaqtbbL
    • A Mann 2010 Teams battle for neuron prize Nature 467 143 20829767 10.1038/467143a 1:CAS:528:DC%2BC3cXhtFaqtbbL
    • (2010) Nature , vol.467 , pp. 143
    • Mann, A.1
  • 27
    • 77954289614 scopus 로고    scopus 로고
    • Neuron tracing in perspective
    • 10.1002/cyto.a.20895
    • E Meijering 2010 Neuron tracing in perspective Cytometry. Part A 77 7 693 704 10.1002/cyto.a.20895
    • (2010) Cytometry. Part A , vol.77 , Issue.7 , pp. 693-704
    • Meijering, E.1
  • 31
    • 77749291911 scopus 로고    scopus 로고
    • Robust adaptive 3-D segmentation of vessel laminae from fluorescence confocal microscope images and parallel GPU implementation
    • 20199906 10.1109/TMI.2009.2022086
    • A Narayanaswamy S Dwarakapuram CS Bjornsson BM Cutler W Shain B Roysam 2010 Robust adaptive 3-D segmentation of vessel laminae from fluorescence confocal microscope images and parallel GPU implementation IEEE Transactions on Medical Imaging 29 3 583 97 20199906 10.1109/TMI.2009.2022086
    • (2010) IEEE Transactions on Medical Imaging , vol.29 , Issue.3 , pp. 583-97
    • Narayanaswamy, A.1    Dwarakapuram, S.2    Bjornsson, C.S.3    Cutler, B.M.4    Shain, W.5    Roysam, B.6
  • 32
    • 77954196544 scopus 로고    scopus 로고
    • Automatic reconstruction of 3-D neuron structures using a graph-augmented deformable model
    • 10.1093/bioinformatics/btq212 1:CAS:528:DC%2BC3cXnsVOksL0%3D
    • HC Peng ZC Ruan D Atasoy S Sternson 2010a Automatic reconstruction of 3-D neuron structures using a graph-augmented deformable model Bioinformatics 26 12 i38 46 10.1093/bioinformatics/btq212 1:CAS:528:DC%2BC3cXnsVOksL0%3D
    • (2010) Bioinformatics , vol.26 , Issue.12 , pp. 38-46
    • Peng, H.C.1    Ruan, Z.C.2    Atasoy, D.3    Sternson, S.4
  • 33
    • 77950679704 scopus 로고    scopus 로고
    • V3D enables real-time 3-D visualization and quantitative analysis of large-scale biological image data sets
    • 10.1038/nbt.1612 1:CAS:528:DC%2BC3cXjt1Ogtb8%3D
    • HC Peng ZC Ruan FH Long JH Simpson EW Myers 2010b V3D enables real-time 3-D visualization and quantitative analysis of large-scale biological image data sets Nature Biotechnology 28 348 353 10.1038/nbt.1612 1:CAS:528: DC%2BC3cXjt1Ogtb8%3D
    • (2010) Nature Biotechnology , vol.28 , pp. 348-353
    • Peng, H.C.1    Ruan, Z.C.2    Long, F.H.3    Simpson, J.H.4    Myers, E.W.5
  • 34
    • 26444587143 scopus 로고    scopus 로고
    • A novel robust tube detection filter for 3D centerline extraction
    • Image Analysis: 14th Scandinavian Conference, SCIA 2005. Proceedings
    • Pock, T., Beichel, R., Bischof, H. (2005). A novel robust tube detection filter for 3-D centerline extraction. 18th Symposium on Operating System Principles, 481-490. (Pubitemid 41422690)
    • (2005) Lecture Notes in Computer Science , vol.3540 , pp. 481-490
    • Pock, T.1    Beichel, R.2    Bischof, H.3
  • 35
    • 38049081130 scopus 로고    scopus 로고
    • NeuriteTracer: A novel ImageJ plugin for automated quantification of neurite outgrowth
    • 17936365 10.1016/j.jneumeth.2007.08.029
    • M Pool J Thiemann A Bar-Or AE Fournier 2008 NeuriteTracer: a novel ImageJ plugin for automated quantification of neurite outgrowth Journal of Neuroscience Methods 168 134 139 17936365 10.1016/j.jneumeth.2007.08.029
    • (2008) Journal of Neuroscience Methods , vol.168 , pp. 134-139
    • Pool, M.1    Thiemann, J.2    Bar-Or, A.3    Fournier, A.E.4
  • 36
    • 7744235523 scopus 로고    scopus 로고
    • New methods for the computer-assisted 3-D reconstruction of neurons from confocal image stacks
    • DOI 10.1016/j.neuroimage.2004.06.047
    • S Schmitt JF Evers C Duch M Scholz K Obermayer 2004 New methods for the computer-assisted 3-D reconstruction of neurons from confocal image stacks Neuroimage 23 1283 1298 15589093 10.1016/j.neuroimage.2004.06.047 (Pubitemid 40260352)
    • (2004) NeuroImage , vol.23 , Issue.4 , pp. 1283-1298
    • Schmitt, S.1    Evers, J.F.2    Duch, C.3    Scholz, M.4    Obermayer, K.5
  • 38
    • 36248980924 scopus 로고    scopus 로고
    • Automated axon tracking of 3D confocal laser scanning microscopy images using guided probabilistic region merging
    • DOI 10.1007/s12021-007-0013-4
    • R Srinivasan XB Zhou E Miller J Lu J Litchman STC Wong 2007 Automated axon tracking of 3-D confocal laser scanning microscopy images using guided probabilistic region merging Neuroinform 5 189 203 10.1007/s12021-007-0013-4 (Pubitemid 350135988)
    • (2007) Neuroinformatics , vol.5 , Issue.3 , pp. 189-203
    • Srinivasan, R.1    Zhou, X.2    Miller, E.3    Lu, J.4    Litchman, J.5    Wong, S.T.C.6
  • 39
    • 77954201127 scopus 로고    scopus 로고
    • Reconstruction of the neuromuscular junction connectome
    • 20529938 10.1093/bioinformatics/btq179 1:CAS:528:DC%2BC3cXnsVOrsrs%3D
    • R Srinivasan XB Zhou E Miller J Lu J Litchman STC Wong 2010 Reconstruction of the neuromuscular junction connectome Bioinformatics 26 12 i64 i70 20529938 10.1093/bioinformatics/btq179 1:CAS:528:DC%2BC3cXnsVOrsrs%3D
    • (2010) Bioinformatics , vol.26 , Issue.12
    • Srinivasan, R.1    Zhou, X.B.2    Miller, E.3    Lu, J.4    Litchman, J.5    Wong, S.T.C.6
  • 41
    • 59249101942 scopus 로고    scopus 로고
    • Detection of the optimal neuron traces in confocal microscopy images
    • 19059434 10.1016/j.jneumeth.2008.11.008
    • Z Vasilkoski A Stepanyants 2009 Detection of the optimal neuron traces in confocal microscopy images Journal of Neuroscience Methods 178 1 197 204 19059434 10.1016/j.jneumeth.2008.11.008
    • (2009) Journal of Neuroscience Methods , vol.178 , Issue.1 , pp. 197-204
    • Vasilkoski, Z.1    Stepanyants, A.2
  • 43
    • 28844498390 scopus 로고    scopus 로고
    • New techniques for imaging, digitization and analysis of three-dimensional neural morphology on multiple scales
    • DOI 10.1016/j.neuroscience.2005.05.053, PII S0306452205005865
    • SL Wearne A Rodriguez DB Ehlenberger AB Rocher SC Hendersion PR Hof 2005 New Techniques for imaging, digitization and analysis of three-dimensional neural morphology on multiple scales Neuroscience 136 661 680 16344143 10.1016/j.neuroscience.2005.05.053 1:CAS:528:DC%2BD2MXhtlaiurvN (Pubitemid 41774717)
    • (2005) Neuroscience , vol.136 , Issue.3 , pp. 661-680
    • Wearne, S.L.1    Rodriguez, A.2    Ehlenberger, D.B.3    Rocher, A.B.4    Henderson, S.C.5    Hof, P.R.6
  • 44
    • 84856030241 scopus 로고    scopus 로고
    • Automatic neuron tracing in volumetric microscopy images with anisotropic path searching
    • 20879349
    • J Xie T Zhao T Lee E Myers H Peng 2010 Automatic neuron tracing in volumetric microscopy images with anisotropic path searching MICCAI 13 2 472 9 20879349
    • (2010) MICCAI , vol.13 , Issue.2 , pp. 472-9
    • Xie, J.1    Zhao, T.2    Lee, T.3    Myers, E.4    Peng, H.5
  • 45
    • 0032028944 scopus 로고    scopus 로고
    • Snakes, shapes, and gradient vector flow
    • PII S105771499801745X
    • C Xu JL Prince 1998 Snakes, shapes, and gradient vector flow IEEE Transactions on Image Processing 7 3 359 369 18276256 10.1109/83.661186 1:STN:280:DC%2BD1c7hslKmtQ%3D%3D (Pubitemid 128745354)
    • (1998) IEEE Transactions on Image Processing , vol.7 , Issue.3 , pp. 359-369
    • Xu, C.1    Prince, J.L.2
  • 46
    • 75149149751 scopus 로고    scopus 로고
    • MDL constrained 3-D grayscale skeletonization algorithm for automated extraction of dendrites and spines from fluorescence confocal images
    • 20012509 10.1007/s12021-009-9057-y
    • X Yuan JT Trachtenberg SM Potter B Roysam 2009 MDL constrained 3-D grayscale skeletonization algorithm for automated extraction of dendrites and spines from fluorescence confocal images Neuroinformatics 7 213 232 20012509 10.1007/s12021-009-9057-y
    • (2009) Neuroinformatics , vol.7 , pp. 213-232
    • Yuan, X.1    Trachtenberg, J.T.2    Potter, S.M.3    Roysam, B.4


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.