Wavelet transform-based de-noising for two-photon imaging of synaptic Ca2+ transients

Biophysical Journal

Volumn 104, Issue 5, 2013, Pages 1006-1017

  Tigaret, Cezar M ^a   Tsaneva Atanasova, Krasimira ^a   Collingridge, Graham L ^a   Mellor, Jack R ^a  

^a UNIVERSITY OF BRISTOL   (United Kingdom)

Author keywords

[No Author keywords available]

Indexed keywords

CALCIUM;

ALGORITHM; ANIMAL; ARTICLE; CALCIUM SIGNALING; CYTOLOGY; EXCITATORY POSTSYNAPTIC POTENTIAL; HIPPOCAMPUS; MALE; METABOLISM; METHODOLOGY; MULTIPHOTON MICROSCOPY; NERVE CELL; PHYSIOLOGY; RAT; SIGNAL NOISE RATIO; SYNAPSE; WAVELET ANALYSIS; WISTAR RAT;

ALGORITHMS; ANIMALS; CALCIUM; CALCIUM SIGNALING; EXCITATORY POSTSYNAPTIC POTENTIALS; HIPPOCAMPUS; MALE; MICROSCOPY, FLUORESCENCE, MULTIPHOTON; NEURONS; RATS; RATS, WISTAR; SIGNAL-TO-NOISE RATIO; SYNAPSES; WAVELET ANALYSIS;

EID: 84874871930     PISSN: 00063495     EISSN: 15420086     Source Type: Journal    
DOI: 10.1016/j.bpj.2013.01.015     Document Type: Article

References (53)

1. B.L. Bloodgood, and B.L. Sabatini Nonlinear regulation of unitary synaptic signals by CaV(2.3) voltage-sensitive calcium channels located in dendritic spines Neuron 53 2007 249 260
2. 2+ and synaptic plasticity Cell Calcium 38 2005 355 367
3. X. Chen, and U. Leischner A. Konnerth Functional mapping of single spines in cortical neurons in vivo Nature 475 2011 501 505
4. J.H. Goldberg, and R. Yuste Two-photon calcium imaging of spines and dendrites Cold Spring Harb. Protoc. 6 2009 5231
5. R. Yasuda, and E.A. Nimchinsky K. Svoboda Imaging calcium concentration dynamics in small neuronal compartments Sci. STKE 2004 2004 pl5
6. N. Emptage, T.V. Bliss, and A. Fine Single synaptic events evoke NMDA receptor-mediated release of calcium from internal stores in hippocampal dendritic spines Neuron 22 1999 115 124
7. J.T. Dudman, D. Tsay, and S.A. Siegelbaum A role for synaptic inputs at distal dendrites: instructive signals for hippocampal long-term plasticity Neuron 56 2007 866 879
8. A.J. Giessel, and B.L. Sabatini M1 muscarinic receptors boost synaptic potentials and calcium influx in dendritic spines by inhibiting postsynaptic SK channels Neuron 68 2010 936 947
9. 2+ influx by D2 dopamine and A2A adenosine receptors Nat. Neurosci. 13 2010 958 966
10. J. Lisman A mechanism for the Hebb and the anti-Hebb processes underlying learning and memory Proc. Natl. Acad. Sci. USA 86 1989 9574 9578
11. 2+ signaling in spike-timing-dependent plasticity J. Neurosci. 26 2006 11001 11013
12. Y. Hayashi, and A.K. Majewska Dendritic spine geometry: functional implication and regulation Neuron 46 2005 529 532
13. 2+ ions in dendritic spines Neuron 33 2002 439 452
14. L.N. Cornelisse, and R.A. van Elburg H.D. Mansvelder High speed two-photon imaging of calcium dynamics in dendritic spines: consequences for spine calcium kinetics and buffer capacity PLoS ONE 2 2007 e1073
15. R. Yuste, A. Majewska, and K. Holthoff From form to function: calcium compartmentalization in dendritic spines Nat. Neurosci. 3 2000 653 659
16. M. Maravall, and Z.F. Mainen K. Svoboda Estimating intracellular calcium concentrations and buffering without wavelength ratioing Biophys. J. 78 2000 2655 2667
17. R. Yasuda, B.L. Sabatini, and K. Svoboda Plasticity of calcium channels in dendritic spines Nat. Neurosci. 6 2003 948 955
18. Z.F. Mainen, R. Malinow, and K. Svoboda Synaptic calcium transients in single spines indicate that NMDA receptors are not saturated Nature 399 1999 151 155
19. T.G. Oertner Functional imaging of single synapses in brain slices Exp. Physiol. 87 2002 733 736
20. B. Ward, and L. McGuinness N.J. Emptage State-dependent mechanisms of LTP expression revealed by optical quantal analysis Neuron 52 2006 649 661
21. W. Denk Two-photon scanning photochemical microscopy: mapping ligand-gated ion channel distributions Proc. Natl. Acad. Sci. USA 91 1994 6629 6633
22. S.S. Wang, and G.J. Augustine Confocal imaging and local photolysis of caged compounds: dual probes of synaptic function Neuron 15 1995 755 760
23. D.V. Sarkisov, and S.S. Wang Alignment and calibration of a focal neurotransmitter uncaging system Nat. Protoc. 1 2006 828 832
24. R. Enoki, and Y.L. Hu A. Fine Expression of long-term plasticity at individual synapses in hippocampus is graded, bidirectional, and mainly presynaptic: optical quantal analysis Neuron 62 2009 242 253
25. P. Marchand, and L. Marmet Binomial smoothing filter: a way to avoid some pitfalls of least-squares polynomial smoothing Rev. Sci. Instrum. 54 1983 1034 1041
26. B.L. Sabatini, and K. Svoboda Analysis of calcium channels in single spines using optical fluctuation analysis Nature 408 2000 589 593
27. C. Taswell The what, how, and why of wavelet shrinkage denoising Comput. Sci. Eng. 2 2000 12 19
28. M.J. Higley, and B.L. Sabatini Calcium signaling in dendrites and spines: practical and functional considerations Neuron 59 2008 902 913
29. S. Mallat A Wavelet Tour of Signal Processing 1999 Elsevier Science New York
30. D.L. Donoho, and I.M. Johnstone Adapting to unknown smoothness via wavelet shrinkage J. Am. Stat. Assoc. 90 1995 1200 1224
31. Donoho, D. L. 1993. Nonlinear wavelet methods for recovery of signals, densities, and spectra from indirect and noisy data. In Proceedings of Symposia in Applied Mathematics. American Mathematical Society, Providence, RI. 173-205.
32. J. Art, and J.B. Pawley Photon detectors for confocal microscopy Handbook Of Biological Confocal Microscopy 2006 Springer US New York 251 264
33. F. Luisier, T. Blu, and M. Unser Image denoising in mixed Poisson-Gaussian noise IEEE Trans. Image Process. 20 2011 696 708
34. F. Luisier, M. Unser, and T. Blu The SURE-LET approach to image denoising IEEE Trans. Image Proc. 16 2009 2778 2786
35. F. v Wegner, M. Both, and R.H.A. Fink Automated detection of elementary calcium release events using the á trous wavelet transform Biophys. J. 90 2006 2151 2163
36. P. Besbeas, I. De Feis, and T. Sapatinas A comparative simulation study of wavelet shrinkage estimators for Poisson counts Int. Stat. Rev. 72 2004 209 237
37. S. Preibisch, S. Saalfeld, and P. Tomancak Globally optimal stitching of tiled 3D microscopic image acquisitions Bioinformatics 25 2009 1463 1465
38. J. Boulanger, and C. Kervrann J. Salamero Patch-based nonlocal functional for denoising fluorescence microscopy image sequences IEEE Trans. Med. Imag 29 2010 442 454
39. Z.I. Botev, J.F. Grotowski, and D.P. Kroese Kernel density estimation via diffusion Ann. Stat. 38 2010 2916 2957
40. J.B. Pawley Fundamental limits in confocal microscopy Handbook Of Biological Confocal Microscopy 2006 Springer US New York 20 42
41. B.L. Bloodgood, A.J. Giessel, and B.L. Sabatini Biphasic synaptic Ca influx arising from compartmentalized electrical signals in dendritic spines PLoS Biol. 7 2009 e1000190
42. H. Motulsky, and A. Christopoulos Fitting Models to Biological Data using Linear and Nonlinear Regression: a Practical Guide to Curve Fitting 2004 Oxford University Press Oxford, UK
43. P. Baldi, and S. Brunak H. Nielsen Assessing the accuracy of prediction algorithms for classification: an overview Bioinformatics 16 2000 412 424
44. J. Hao, and T.G. Oertner Depolarization gates spine calcium transients and spike-timing-dependent potentiation Curr. Opin. Neurobiol. 22 2012 509 515
45. M. Vetterli, and J. Kovačević Wavelets and Subband Coding 1995 Prentice Hall Upper Saddle River, NJ
46. K. Svoboda, D.W. Tank, and W. Denk Direct measurement of coupling between dendritic spines and shafts Science 272 1996 716 719
47. B.F. Grewe, and D. Langer F. Helmchen High-speed in vivo calcium imaging reveals neuronal network activity with near-millisecond precision Nat. Methods 7 2010 399 405
48. A. Majewska, and E. Brown R. Yuste Mechanisms of calcium decay kinetics in hippocampal spines: role of spine calcium pumps and calcium diffusion through the spine neck in biochemical compartmentalization J. Neurosci. 20 2000 1722 1734
49. R. Foord, and R. Jones E.R. Pike The use of photomultiplier tubes for photon counting Appl. Opt. 8 1969 1975 1989
50. D.L. Fried Noise in photoemission current Appl. Opt. 4 1965 79 80
51. J.R. Prescott A statistical model for photomultiplier single-electron statistics Nucl. Instrum. Methods 39 1966 173 179
52. W.H. Wright Electron multiplier pulse-height distributions J. Appl. Phys. 39 1968 3492 3495
53. A.G. Wright The statistics of multi-photoelectron pulse-height distributions Nucl. Instrum. Methods Phys. Res. A 579 2007 967 972