Photon shot noise limits on optical detection of neuronal spikes and estimation of spike timing

Biophysical Journal

Volumn 104, Issue 1, 2013, Pages 51-62

  Wilt, Brian A ^a   Fitzgerald, James E ^a   Schnitzer, Mark J ^a,b  

^a STANFORD UNIVERSITY   (United States)

^b STANFORD UNIVERSITY   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

ACTION POTENTIAL; ANIMAL; ARTICLE; COMPUTER SIMULATION; FLUORESCENCE IMAGING; FLUORESCENCE RESONANCE ENERGY TRANSFER; NERVE CELL; PHOTON; PHYSIOLOGY; SIGNAL PROCESSING; TIME;

ACTION POTENTIALS; ANIMALS; COMPUTER SIMULATION; FLUORESCENCE RESONANCE ENERGY TRANSFER; NEURONS; OPTICAL IMAGING; PHOTONS; SIGNAL PROCESSING, COMPUTER-ASSISTED; TIME FACTORS;

EID: 84872139167     PISSN: 00063495     EISSN: 15420086     Source Type: Journal    
DOI: 10.1016/j.bpj.2012.07.058     Document Type: Article

References (57)

1. B.A. Wilt, and L.D. Burns M.J. Schnitzer Advances in light microscopy for neuroscience Annu. Rev. Neurosci. 32 2009 435 506
2. F. Helmchen, J.G.G. Borst, and B. Sakmann Calcium dynamics associated with a single action potential in a CNS presynaptic terminal Biophys. J. 72 1997 1458 1471 (Pubitemid 27113668)
3. 2+ sensor Nat. Methods 5 2008 797 804
4. T. Mao, and D.H. O'Connor K. Svoboda Characterization and subcellular targeting of GCaMP-type genetically-encoded calcium indicators PLoS ONE 3 2008 e1796
5. J.N.D. Kerr, D.S. Greenberg, and F. Helmchen Imaging input and output of neocortical networks in vivo Proc. Natl. Acad. Sci. USA 102 2005 14063 14068 (Pubitemid 41377703)
6. B.A. Flusberg, and A. Nimmerjahn M.J. Schnitzer High-speed, miniaturized fluorescence microscopy in freely moving mice Nat. Methods 5 2008 935 938
7. E.A. Mukamel, A. Nimmerjahn, and M.J. Schnitzer Automated analysis of cellular signals from large-scale calcium imaging data Neuron 63 2009 747 760
8. S.A. Hires, L. Tian, and L.L. Looger Reporting neural activity with genetically encoded calcium indicators Brain Cell Biol. 36 2008 69 86
9. L. Sjulson, and G. Miesenböck Optical recording of action potentials and other discrete physiological events: a perspective from signal detection theory Physiology (Bethesda) 22 2007 47 55
10. R. Yasuda, and E.A. Nimchinsky K. Svoboda Imaging calcium concentration dynamics in small neuronal compartments Sci. STKE 2004 2004 pl5
11. 2+ indicators, yellow Cameleon-Nano Nat. Methods 7 2010 729 732
12. L. Tian, and S.A. Hires L.L. Looger Imaging neural activity in worms, flies and mice with improved GCaMP calcium indicators Nat. Methods 6 2009 875 881
13. M. Mank, and A.F. Santos O. Griesbeck A genetically encoded calcium indicator for chronic in vivo two-photon imaging Nat. Methods 5 2008 805 811
14. T. Hendel, and M. Mank D.F. Reiff Fluorescence changes of genetic calcium indicators and OGB-1 correlated with neural activity and calcium in vivo and in vitro J. Neurosci. 28 2008 7399 7411
15. 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
16. T. Sasaki, and N. Takahashi Y. Ikegaya Fast and accurate detection of action potentials from somatic calcium fluctuations J. Neurophysiol. 100 2008 1668 1676
17. J.T. Vogelstein, and B.O. Watson L. Paninski Spike inference from calcium imaging using sequential Monte Carlo methods Biophys. J. 97 2009 636 655
18. J.T. Vogelstein, and A.M. Packer L. Paninski Fast nonnegative deconvolution for spike train inference from population calcium imaging J. Neurophysiol. 104 2010 3691 3704
19. D.G. Chapman, and H. Robbins Minimum variance estimation without regularity assumptions Ann. Math. Stat. 22 1951 581 586
20. J.M. Hammersley On estimating restricted parameters J. R. Stat. Soc. B 12 1950 192 240
21. 2+ indicators with greatly improved fluorescence properties J. Biol. Chem. 260 1985 3440 3450 (Pubitemid 15114340)
22. 2+ based on green fluorescent proteins and calmodulin Nature 388 1997 882 887 (Pubitemid 27377061)
23. 2+ signaling in dendrites of pyramidal neurons Biophys. J. 70 1996 1069 1081
24. 2+ imaging Nat. Methods 3 2006 377 383
25. H.V. Poor An Introduction to Signal Detection and Estimation 1998 Springer New York
26. T.H. Cormen, and C.E. Leiserson C. Stein Introduction to Algorithms 2009 The MIT Press Cambridge, MA
27. S.M. Kay Fundamentals of Statistical Signal Processing 1993 Prentice-Hall Englewood Cliffs, NJ
28. B. Reiffen, and H. Sherman An optimum demodulator for Poisson processes: photon source detectors Proc. IEEE 51 1963 1316 1320
29. S. Joucla, and A. Pippow C. Pouzat Quantitative estimation of calcium dynamics from ratiometric measurements: a direct, nonratioing method J. Neurophysiol. 103 2010 1130 1144
30. F. Rieke, and D. Warland W. Bialek Spikes: Exploring the Neural Code 1999 MIT Press Cambridge, MA
31. W.E. Skaggs, and B.L. McNaughton C.A. Barnes Theta phase precession in hippocampal neuronal populations and the compression of temporal sequences Hippocampus 6 1996 149 172 (Pubitemid 26232443)
32. J. O'Keefe, and M.L. Recce Phase relationship between hippocampal place units and the EEG θ-rhythm Hippocampus 3 1993 317 330 (Pubitemid 23231466)
33. G. Buzsáki Theta oscillations in the hippocampus Neuron 33 2002 325 340 (Pubitemid 34158839)
34. W.M. Usrey, and R.C. Reid Synchronous activity in the visual system Annu. Rev. Physiol. 61 1999 435 456 (Pubitemid 29143178)
35. E. Covey, and J.H. Casseday Timing in the auditory system of the bat Annu. Rev. Physiol. 61 1999 457 476 (Pubitemid 29143179)
36. D. Oertel The role of timing in the brain stem auditory nuclei of vertebrates Annu. Rev. Physiol. 61 1999 497 519 (Pubitemid 29143181)
37. L.O. Trussell Synaptic mechanisms for coding timing in auditory neurons Annu. Rev. Physiol. 61 1999 477 496 (Pubitemid 29143180)
38. G. Duemani Reddy, and K. Kelleher P. Saggau Three-dimensional random access multiphoton microscopy for functional imaging of neuronal activity Nat. Neurosci. 11 2008 713 720 (Pubitemid 351748113)
39. G.D. Reddy, and P. Saggau Fast three-dimensional laser scanning scheme using acousto-optic deflectors J. Biomed. Opt. 10 2005 064038
40. D. Vucinić, and T.J. Sejnowski A compact multiphoton 3D imaging system for recording fast neuronal activity PLoS ONE 2 2007 e699
41. N. Ji, J.C. Magee, and E. Betzig High-speed, low-photodamage nonlinear imaging using passive pulse splitters Nat. Methods 5 2008 197 202 (Pubitemid 351192665)
42. N. Ji, D.E. Milkie, and E. Betzig Adaptive optics via pupil segmentation for high-resolution imaging in biological tissues Nat. Methods 7 2010 141 147
43. C.J. Engelbrecht, W. Göbel, and F. Helmchen Enhanced fluorescence signal in nonlinear microscopy through supplementary fiber-optic light collection Opt. Express 17 2009 6421 6435
44. D.S. Greenberg, A.R. Houweling, and J.N.D. Kerr Population imaging of ongoing neuronal activity in the visual cortex of awake rats Nat. Neurosci. 11 2008 749 751 (Pubitemid 351896680)
45. T.F. Holekamp, D. Turaga, and T.E. Holy Fast three-dimensional fluorescence imaging of activity in neural populations by objective-coupled planar illumination microscopy Neuron 57 2008 661 672 (Pubitemid 351337670)
46. D.S. Peterka, H. Takahashi, and R. Yuste Imaging voltage in neurons Neuron 69 2011 9 21
47. I. Ozden, and H.M. Lee S.S. Wang Identification and clustering of event patterns from in vivo multiphoton optical recordings of neuronal ensembles J. Neurophysiol. 100 2008 495 503
48. K.K. Ghosh, and L.D. Burns M.J. Schnitzer Miniaturized integration of a fluorescence microscope Nat. Methods 8 2011 871 878
49. B.M. Salzberg, H.V. Davila, and L.B. Cohen Optical recording of impulses in individual neurones of an invertebrate central nervous system Nature 246 1973 508 509
50. L.B. Cohen, and B.M. Salzberg C.H. Wang Changes in axon fluorescence during activity: molecular probes of membrane potential J. Membr. Biol. 19 1974 1 36
51. L. Sacconi, D.A. Dombeck, and W.W. Webb Overcoming photodamage in second-harmonic generation microscopy: real-time optical recording of neuronal action potentials Proc. Natl. Acad. Sci. USA 103 2006 3124 3129 (Pubitemid 43346435)
52. C.D. Acker, P. Yan, and L.M. Loew Single-voxel recording of voltage transients in dendritic spines Biophys. J. 101 2011 L11 L13
53. D. Zecević, and J.-Y. Wu C.X. Falk Hundreds of neurons in the Aplysia abdominal ganglion are active during the gill-withdrawal reflex J. Neurosci. 9 1989 3681 3689 (Pubitemid 19260042)
54. L. Sacconi, and J. Mapelli F.S. Pavone Optical recording of electrical activity in intact neuronal networks with random access second-harmonic generation microscopy Opt. Express 16 2008 14910 14921
55. K.P. Holthoff, D. Zečević, and A. Konnerth Rapid time course of action potentials in spines and remote dendrites of mouse visual cortex neurons J. Physiol. 588 2010 1085 1096
56. W. Akemann, and H. Mutoh T. Knöpfel Imaging brain electric signals with genetically targeted voltage-sensitive fluorescent proteins Nat. Methods 7 2010 643 649
57. J.M. Kralj, and D.R. Hochbaum A.E. Cohen Electrical spiking in Escherichia coli probed with a fluorescent voltage-indicating protein Science 333 2011 345 348