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Volumn 29, Issue 13, 2013, Pages

A high-throughput framework to detect synapses in electron microscopy images

Author keywords

[No Author keywords available]

Indexed keywords

ALGORITHM; ANIMAL; ARTICLE; ARTIFICIAL INTELLIGENCE; ELECTRON MICROSCOPY; GROWTH, DEVELOPMENT AND AGING; METHODOLOGY; MOUSE; SOMATOSENSORY CORTEX; SYNAPSE; ULTRASTRUCTURE; PROCEDURES;

EID: 84879949941     PISSN: 13674803     EISSN: 14602059     Source Type: Journal    
DOI: 10.1093/bioinformatics/btt222     Document Type: Conference Paper
Times cited : (16)

References (56)
  • 1
    • 79960909229 scopus 로고    scopus 로고
    • Experimental evaluation of support vector machine-based and correlation-based approaches to automatic particle selection
    • Arbelaez, P. et al. (2011) Experimental evaluation of support vector machine-based and correlation-based approaches to automatic particle selection. J. Struct. Biol., 175, 319-328.
    • (2011) J. Struct. Biol. , vol.175 , pp. 319-328
    • Arbelaez, P.1
  • 2
    • 0014026167 scopus 로고
    • Cytochemistry of synapses: Selective staining for electron microscopy
    • Bloom, F.E. and Aghajanian, G.K. (1966) Cytochemistry of synapses: Selective staining for electron microscopy. Science, 154, 1575-1577.
    • (1966) Science , vol.154 , pp. 1575-1577
    • Bloom, F.E.1    Aghajanian, G.K.2
  • 3
    • 0014259642 scopus 로고
    • Fine structural and cytochemical analysis of the staining of synaptic junctions with phosphotungstic acid
    • Bloom, F.E. and Aghajanian, G.K. (1968) Fine structural and cytochemical analysis of the staining of synaptic junctions with phosphotungstic acid. J. Ultrastruct. Res., 22, 361-375.
    • (1968) J. Ultrastruct. Res. , vol.22 , pp. 361-375
    • Bloom, F.E.1    Aghajanian, G.K.2
  • 5
    • 79952376773 scopus 로고    scopus 로고
    • Network anatomy and in vivo physiology of visual cortical neurons
    • Bock, D.D. et al. (2011) Network anatomy and in vivo physiology of visual cortical neurons. Nature, 471, 177-182.
    • (2011) Nature , vol.471 , pp. 177-182
    • Bock, D.D.1
  • 6
    • 0035478854 scopus 로고    scopus 로고
    • Random forests
    • Breiman, L. (2001) Random forests. Mach. Learn., 45, 5-32.
    • (2001) Mach. Learn. , vol.45 , pp. 5-32
    • Breiman, L.1
  • 7
    • 84862556352 scopus 로고    scopus 로고
    • TrakEM2 software for neural circuit reconstruction
    • Cardona, A. et al. (2012) TrakEM2 software for neural circuit reconstruction. PLoS One, 7, e38011.
    • (2012) PLoS One , vol.7
    • Cardona, A.1
  • 8
    • 79955702502 scopus 로고    scopus 로고
    • LIBSVM: A library for support vector machines
    • Chang, C.-C. and Lin, C.-J. (2011) LIBSVM: A library for support vector machines. ACM Trans. Intell. Syst. Technol., 2, 27:1-27:27.
    • (2011) ACM Trans Intell. Syst. Technol. , vol.2 , pp. 271-2727
    • Chang, C.-C.1    Lin, C.-J.2
  • 9
    • 77953631173 scopus 로고    scopus 로고
    • Synapse loss in dementias
    • Clare, R. et al. (2010) Synapse loss in dementias. J. Neurosci. Res., 88, 2083-2090.
    • (2010) J. Neurosci. Res. , vol.88 , pp. 2083-2090
    • Clare, R.1
  • 10
    • 0030027461 scopus 로고    scopus 로고
    • Methods for determining numbers of cells and synapses: A case for more uniform standards of review
    • Coggeshall, R.E. and Lekan, H.A. (1996) Methods for determining numbers of cells and synapses: A case for more uniform standards of review. J. Comp. Neurol., 364, 6-15.
    • (1996) J. Comp. Neurol. , vol.364 , pp. 6-15
    • Coggeshall, R.E.1    Lekan, H.A.2
  • 11
    • 20544469438 scopus 로고    scopus 로고
    • Gonadal hormone modulation of dendrites in the mammalian CNS
    • Cooke, B.M. and Woolley, C.S. (2005) Gonadal hormone modulation of dendrites in the mammalian CNS. J. Neurobiol., 64, 34-46.
    • (2005) J. Neurobiol. , vol.64 , pp. 34-46
    • Cooke, B.M.1    Woolley, C.S.2
  • 12
    • 0021133682 scopus 로고
    • Regressive events in neurogenesis
    • Cowan, W.M. et al. (1984) Regressive events in neurogenesis. Science, 225, 1258-1265.
    • (1984) Science , vol.225 , pp. 1258-1265
    • Cowan, W.M.1
  • 13
    • 67349240795 scopus 로고    scopus 로고
    • A systematic random sampling scheme optimized to detect the proportion of rare synapses in the neuropil
    • da Costa, N.M. et al. (2009) A systematic random sampling scheme optimized to detect the proportion of rare synapses in the neuropil. J. Neurosci.Methods, 180, 77-81.
    • (2009) J. Neurosci.Methods , vol.180 , pp. 77-81
    • Da Costa, N.M.1
  • 14
    • 33645146449 scopus 로고    scopus 로고
    • Histograms of oriented gradients for human detection
    • Schmid, C., et al. (eds (CVPR IEEE Computer Society, Washington DC USA
    • Dalal, N. and Triggs, B. (2005) Histograms of oriented gradients for human detection. In: Schmid, C., et al. (eds), Proceedings of the International Conference on Computer Vision and Pattern Recognition (CVPR), Vol. 2, IEEE Computer Society, Washington, DC, USA, pp. 886-893.
    • (2005) Proceedings of the International Conference on Computer Vision and Pattern Recognition , vol.2 , pp. 886-893
    • Dalal, N.1    Triggs, B.2
  • 15
    • 0030700502 scopus 로고    scopus 로고
    • Inhibitory synaptogenesis in mouse somatosensory cortex
    • De Felipe, J. et al. (1997) Inhibitory synaptogenesis in mouse somatosensory cortex. Cereb. Cortex, 7, 619-634.
    • (1997) Cereb. Cortex , vol.7 , pp. 619-634
    • De Felipe, J.1
  • 16
    • 84859984787 scopus 로고    scopus 로고
    • Structural neurobiology: Nissing link to a mechanistic understanding of neural computation
    • Denk, W. et al. (2012) Structural neurobiology: Nissing link to a mechanistic understanding of neural computation. Nat. Rev. Neurosci., 13, 351-358.
    • (2012) Nat. Rev. Neurosci. , vol.13 , pp. 351-358
    • Denk, W.1
  • 17
    • 0015285440 scopus 로고
    • Use of the hough transformation to detect lines and curves in pictures
    • Duda, R.O. and Hart, P.E. (1972) Use of the hough transformation to detect lines and curves in pictures. Commun. ACM, 15, 11-15.
    • (1972) Commun. ACM , vol.15 , pp. 11-15
    • Duda, R.O.1    Hart, P.E.2
  • 18
    • 84863542265 scopus 로고    scopus 로고
    • Improved synapse detection for mGRASP-assisted brain connectivity mapping
    • Feng, L. et al. (2012) Improved synapse detection for mGRASP-assisted brain connectivity mapping. Bioinformatics, 28, 25-31.
    • (2012) Bioinformatics , vol.28 , pp. 25-31
    • Feng, L.1
  • 19
    • 84879938601 scopus 로고    scopus 로고
    • Cambridge University Press, Cambridge
    • Fox, K. (2008) Barrel Cortex. Cambridge University Press, Cambridge.
    • (2008) Barrel Cortex.
    • Fox, K.1
  • 20
    • 84983110889 scopus 로고
    • A decision-theoretic generalization of on-line learning and an application to boosting
    • EuroCOLT). Springer-Verlag, London, UK
    • Freund, Y. and Schapire, R.E. (1995) A decision-theoretic generalization of on-line learning and an application to boosting. In Proceedings of the Second European Conference on Computational Learning Theory (EuroCOLT). pp. 23-37. Springer- Verlag, London, UK.
    • (1995) Proceedings of the Second European Conference on Computational Learning Theory , pp. 23-37
    • Freund, Y.1    Schapire, R.E.2
  • 21
    • 4944233815 scopus 로고    scopus 로고
    • Rett syndrome: Of girls and mice-lessons for regression in autism.Ment
    • Glaze, D.G. (2004) Rett syndrome: Of girls and mice-lessons for regression in autism.Ment. Retard Dev. Disabil. Res. Rev., 10, 154-158.
    • (2004) Retard Dev. Disabil. Res. Rev. , vol.10 , pp. 154-158
    • Glaze, D.G.1
  • 22
    • 0025720084 scopus 로고
    • Analysis of neocortex in three males with the fragile X syndrome
    • Hinton, V.J. et al. (1991) Analysis of neocortex in three males with the fragile X syndrome. Am. J. Med. Genet., 41, 289-294.
    • (1991) Am. J. Med. Genet. , vol.41 , pp. 289-294
    • Hinton, V.J.1
  • 23
    • 0030883534 scopus 로고    scopus 로고
    • Regional differences in synaptogenesis in human cerebral cortex
    • Huttenlocher, P.R. and Dabholkar, A.S. (1997) Regional differences in synaptogenesis in human cerebral cortex. J. Comp. Neurol., 387, 167-178.
    • (1997) J. Comp. Neurol. , vol.387 , pp. 167-178
    • Huttenlocher, P.R.1    Dabholkar, A.S.2
  • 24
    • 77957021569 scopus 로고    scopus 로고
    • Machines that learn to segment images: A crucial technology for connectomics
    • Jain, V. et al. (2010)Machines that learn to segment images: A crucial technology for connectomics. Curr. Opin. Neurobiol., 20, 653-666.
    • (2010) Curr. Opin. Neurobiol. , vol.20 , pp. 653-666
    • Jain, V.1
  • 25
    • 27144523524 scopus 로고    scopus 로고
    • Rett syndrome and neuronal development
    • Johnston, M.V. et al. (2005) Rett syndrome and neuronal development. J. Child Neurol., 20, 759-763.
    • (2005) J. Child Neurol. , vol.20 , pp. 759-763
    • Johnston, M.V.1
  • 26
    • 84856418376 scopus 로고    scopus 로고
    • MGRASP enables mapping mammalian synaptic connectivity with light microscopy
    • Kim, J. et al. (2012) mGRASP enables mapping mammalian synaptic connectivity with light microscopy. Nat. Methods, 9, 96-102.
    • (2012) Nat. Methods , vol.9 , pp. 96-102
    • Kim, J.1
  • 28
    • 0037061693 scopus 로고    scopus 로고
    • Formation of dendritic spines with GABAergic synapses induced by whisker stimulation in adult mice
    • Knott, G.W. et al. (2002) Formation of dendritic spines with GABAergic synapses induced by whisker stimulation in adult mice. Neuron, 34, 265-273.
    • (2002) Neuron , vol.34 , pp. 265-273
    • Knott, G.W.1
  • 29
    • 80054845687 scopus 로고    scopus 로고
    • Automated detection and segmentation of synaptic contacts in nearly isotropic serial electron microscopy images
    • Kreshuk, A. et al. (2011) Automated detection and segmentation of synaptic contacts in nearly isotropic serial electron microscopy images. PLoS One, 6, e24899.
    • (2011) PLoS One , vol.6
    • Kreshuk, A.1
  • 30
    • 84861084203 scopus 로고    scopus 로고
    • Examining form and function of dendritic spines
    • Lee, K.F. et al. (2012) Examining form and function of dendritic spines. Neural Plast., 2012, 704103.
    • (2012) Neural Plast. , vol.2012 , pp. 704103
    • Lee, K.F.1
  • 31
    • 58549118757 scopus 로고    scopus 로고
    • The excitatory neuronal network of the c2 barrel column in mouse primary somatosensory cortex
    • Lefort, S. et al. (2009) The excitatory neuronal network of the c2 barrel column in mouse primary somatosensory cortex. Neuron, 61, 301-316.
    • (2009) Neuron , vol.61 , pp. 301-316
    • Lefort, S.1
  • 32
    • 0035358496 scopus 로고    scopus 로고
    • Representing and recognizing the visual appearance of materials using three-dimensional textons
    • Leung, T. and Malik, J. (2001) Representing and recognizing the visual appearance of materials using three-dimensional textons. Int. J. Comput. Vision, 43, 29-44.
    • (2001) Int. J. Comput. Vision , vol.43 , pp. 29-44
    • Leung, T.1    Malik, J.2
  • 33
    • 0030451286 scopus 로고    scopus 로고
    • How to count synapses unbiasedly and efficiently at the ultrastructural level: Proposal for a standard sampling and counting protocol
    • Mayhew, T.M. (1996) How to count synapses unbiasedly and efficiently at the ultrastructural level: Proposal for a standard sampling and counting protocol. J. Neurocytol., 25, 793-804.
    • (1996) J. Neurocytol. , vol.25 , pp. 793-804
    • Mayhew, T.M.1
  • 34
    • 77954847643 scopus 로고    scopus 로고
    • Counting synapses using FIB/SEM microscopy: A true revolution for ultrastructural volume reconstruction
    • Merchan-Perez, A. et al. (2009) Counting synapses using FIB/SEM microscopy: A true revolution for ultrastructural volume reconstruction. Front. Neuroanat., 3, 18.
    • (2009) Front. Neuroanat. , vol.3 , pp. 18
    • Merchan-Perez, A.1
  • 35
    • 0029587606 scopus 로고
    • An anatomical substrate for experience-dependent plasticity of the rat barrel field cortex
    • Micheva, K.D. and Beaulieu, C. (1995) An anatomical substrate for experience-dependent plasticity of the rat barrel field cortex. Proc. Natl Acad. Sci. USA, 92, 11834-11838.
    • (1995) Proc. Natl Acad. Sci. USA , vol.92 , pp. 11834-11838
    • Micheva, K.D.1    Beaulieu, C.2
  • 36
    • 84862983600 scopus 로고    scopus 로고
    • Espina: A tool for the automated segmentation and counting of synapses in large stacks of electron microscopy images
    • Morales, J. et al. (2011) Espina: A tool for the automated segmentation and counting of synapses in large stacks of electron microscopy images. Front. Neuroanat., 5, 18.
    • (2011) Front. Neuroanat. , vol.5 , pp. 18
    • Morales, J.1
  • 37
    • 59949091187 scopus 로고    scopus 로고
    • Increased synapses in the medial prefrontal cortex are associated with repeated amphetamine administration
    • Morshedi, M.M. et al. (2009) Increased synapses in the medial prefrontal cortex are associated with repeated amphetamine administration. Synapse, 63, 126-135.
    • (2009) Synapse , vol.63 , pp. 126-135
    • Morshedi, M.M.1
  • 38
    • 79952698982 scopus 로고    scopus 로고
    • The role of MeCP2 in CNS development and function
    • Na, E.S. and Monteggia, L.M. (2011) The role of MeCP2 in CNS development and function. Horm. Behav., 59, 364-368.
    • (2011) Horm. Behav. , vol.59 , pp. 364-368
    • Na, E.S.1    Monteggia, L.M.2
  • 39
    • 0035879180 scopus 로고    scopus 로고
    • Abnormal development of dendritic spines in FMR1 knock-out mice
    • Nimchinsky, E.A. et al. (2001) Abnormal development of dendritic spines in FMR1 knock-out mice. J. Neurosci., 21, 5139-5146.
    • (2001) J. Neurosci. , vol.21 , pp. 5139-5146
    • Nimchinsky, E.A.1
  • 40
    • 50549104043 scopus 로고    scopus 로고
    • Bioimage informatics: A new area of engineering biology
    • Peng, H. (2008) Bioimage informatics: A new area of engineering biology. Bioinformatics, 24, 1827-1836.
    • (2008) Bioinformatics , vol.24 , pp. 1827-1836
    • Peng, H.1
  • 41
    • 70349974168 scopus 로고    scopus 로고
    • The state of synapses in fragile X syndrome
    • Pfeiffer, B.E. and Huber, K.M. (2009) The state of synapses in fragile X syndrome. Neuroscientist, 15, 549-567.
    • (2009) Neuroscientist , vol.15 , pp. 549-567
    • Pfeiffer, B.E.1    Huber, K.M.2
  • 43
    • 80053044008 scopus 로고    scopus 로고
    • SHOG: Spherical hog descriptors for rotation invariant 3d object detection
    • DAGM'11. Springer Verlag, Berlin, Heidelberg
    • Skibbe, H. et al. (2011) SHOG: Spherical hog descriptors for rotation invariant 3d object detection. In Proceedings of the 33rd International Conference on Pattern Recognition, DAGM'11. pp. 142-151. Springer-Verlag, Berlin, Heidelberg.
    • (2011) Proceedings of the 33rd International Conference on Pattern Recognition , pp. 142-151
    • Skibbe, H.1
  • 44
    • 18044383304 scopus 로고    scopus 로고
    • Highly nonrandom features of synaptic connectivity in local cortical circuits
    • Song, S. et al. (2005) Highly nonrandom features of synaptic connectivity in local cortical circuits. PLoS Biol., 3, e68.
    • (2005) PLoS Biol. , vol.3
    • Song, S.1
  • 46
    • 78149449842 scopus 로고    scopus 로고
    • Rules of engagement: Factors that regulate activity-dependent synaptic plasticity during neural network development
    • Stoneham, E.T. et al. (2010) Rules of engagement: Factors that regulate activity-dependent synaptic plasticity during neural network development. Biol. Bull., 219, 81-99.
    • (2010) Biol. Bull. , vol.219 , pp. 81-99
    • Stoneham, E.T.1
  • 48
    • 84858131466 scopus 로고    scopus 로고
    • The synaptic pathology of drug addiction
    • Van den Oever, M.C. et al. (2012) The synaptic pathology of drug addiction. Adv. Exp. Med. Biol., 970, 469-491.
    • (2012) Adv. Exp. Med. Biol. , vol.970 , pp. 469-491
    • Van Den Oever, M.C.1
  • 51
    • 79952995239 scopus 로고    scopus 로고
    • Input-specific critical periods for experience-dependent plasticity in layer 2/3 pyramidal neurons
    • Wen, J.A. and Barth, A.L. (2011) Input-specific critical periods for experience-dependent plasticity in layer 2/3 pyramidal neurons. J. Neurosci., 31, 4456-4465.
    • (2011) J. Neurosci. , vol.31 , pp. 4456-4465
    • Wen, J.A.1    Barth, A.L.2
  • 52
    • 0030836505 scopus 로고    scopus 로고
    • A survey of morphogenesis during the early postnatal period in PMBSF barrels of mouse SmI cortex with emphasis on barrel D4
    • White, E.L. et al. (1997) A survey of morphogenesis during the early postnatal period in PMBSF barrels of mouse SmI cortex with emphasis on barrel D4. Somatosens. Mot. Res., 14, 34-55.
    • (1997) Somatosens. Mot. Res. , vol.14 , pp. 34-55
    • White, E.L.1
  • 53
    • 0002221492 scopus 로고
    • The structure of the nervous system of the nematode Caenorhabditis elegans
    • White, J.G. et al. (1986) The structure of the nervous system of the nematode Caenorhabditis elegans. Philos. Trans. R. Soc. Lond. B Biol. Sci., 314, 1-340.
    • (1986) Philos. Trans. R. Soc. Lond. B Biol. Sci. , vol.314 , pp. 1-340
    • White, J.G.1
  • 54
    • 78650233515 scopus 로고    scopus 로고
    • An embedded subnetwork of highly active neurons in the neocortex
    • Yassin, L. et al. (2010) An embedded subnetwork of highly active neurons in the neocortex. Neuron, 68, 1043-1050.
    • (2010) Neuron , vol.68 , pp. 1043-1050
    • Yassin, L.1
  • 55
    • 33745456231 scopus 로고    scopus 로고
    • Semi-supervised learning literature survey
    • University of Wisconsin-Madison, Madison
    • Zhu, X. (2005) Semi-supervised learning literature survey. Technical report. Computer Sciences, University of Wisconsin-Madison, Madison.
    • (2005) Technical report. Computer Sciences
    • Zhu, X.1


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