Global analysis of autocorrelation functions and photon counting distributions in fluorescence fluctuation spectroscopy

Methods in Molecular Biology

Volumn 1076, Issue , 2014, Pages 719-741

  Skakun, Victor V ^a   Digris, Anatoli V ^a   Apanasovich, Vladimir V ^a  

^a BELARUSIAN STATE UNIVERSITY   (Belarus)

Author keywords

Fluorescence correlation spectroscopy; Fluorescence fluctuation spectroscopy; Fluorescence intensity distribution analysis; Global analysis; Photon counting histogram

Indexed keywords

ENHANCED GREEN FLUORESCENT PROTEIN;

ABSORPTION; ARTICLE; BINOMIAL DISTRIBUTION; BRIGHTNESS; CONTROLLED STUDY; DIFFUSION COEFFICIENT; FLUORESCENCE CORRELATION SPECTROSCOPY; HISTOGRAM; MOLECULAR WEIGHT; PHOTON; POISSON DISTRIBUTION; PRIORITY JOURNAL; QUANTUM YIELD;

DIFFUSION; FLUORESCENCE; GREEN FLUORESCENT PROTEINS; MODELS, THEORETICAL; PHOTONS; SPECTROMETRY, FLUORESCENCE;

EID: 84934435149     PISSN: 10643745     EISSN: None     Source Type: Book Series    
DOI: 10.1007/978-1-62703-649-8_33     Document Type: Article

References (40)

1. Magde D, Elson E, Webb WW (1972) Thermodynamic fluctuations in a reaction system: measurement by fluorescence correlation spectroscopy. Phys Rev Lett 29(11):705-708
2. Elson EL, Magde D (1974) Fluorescence correlation spectroscopy. I Conceptual basis and theory. Biopolymers 13(1):29-61
3. Magde D, Elson EL, Webb WW (1974) Fluorescence correlation spectroscopy. II. An experimental realization. Biopolymers 13 (1):29-61. doi:10.1002/bip.1974. 36013 0103
4. Krichevsky O, Bonnet G (2002) Fluorescence correlation spectroscopy: the technique and its applications. Rep Prog Phys 65:251-297
5. Thompson NL, Lieto AM, Allen NW (2002) Recent advances in fluorescence correlation spectroscopy. Curr Opin Struct Biol 12 (5):634-641
6. Haustein E, Schwille P (2007) Fluorescence correlation spectroscopy: novel variations of an established technique. Annu Rev Biophys Biomol Struct 36:151-169. doi:10.1146/annurev.biophys.36.040306.132612
7. Rigler R, Elson E (eds) (2001) Fluorescence correlation spectroscopy. Theory and applications. Springer, Berlin
8. Widengren J, Mets U, Rigler R (1995) Fluorescence correlation spectroscopy of triplet states in solution: a theoretical and experimental study. J Phys Chem 99:13368-13379
9. Chen Y, Muller JD, So PT, Gratton E (1999) The photon counting histogram in fluorescence fluctuation spectroscopy. Biophys J 77 (1):553-567
10. Chen Y, Tekmen M, Hillesheim L, Skinner J,Wu B,Muller JD(2005) Dual-color photon-counting histogram. Biophys J 88(3):2177-2192. doi:10.1529/biophysj.104. 048413
11. Kask P, Palo K, Ullmann D, Gall K (1999) Fluorescence-intensity distribution analysis and its application in biomolecular detection technology. Proc Natl Acad Sci USA 96 (24):13756-13761
12. Kask P, Palo K, Fay N, Brand L, Mets U, Ullmann D, Jungmann J, Pschorr J, Gall K (2000) Two-dimensional fluorescence intensity distribution analysis: theory and applications. Biophys J 78(4):1703-1713
13. Hess ST, Webb WW (2002) Focal volume optics and experimental artifacts in confocal fluorescence correlation spectroscopy. Biophys J 83(4):2300-2317
14. Hillesheim LN, Muller JD (2003) The photon counting histogram in fluorescence fluctuation spectroscopy with non-ideal photodetectors. Biophys J 85(3):1948-1958
15. Enderlein J, Gregor I, Patra D, Dertinger T, Kaupp UB (2005) Performance of fluorescence correlation spectroscopy for measuring diffusion and concentration. Chemphyschem 6 (11):2324-2336
16. Gregor I, Patra D, Enderlein J (2005) Optical saturation in fluorescence correlation spectroscopy under continuous-wave and pulsed excitation. Chemphyschem 6(1):164-170. doi:10.1002/cphc.200400319
17. Perroud TD, Huang B, Wallace MI, Zare RN (2003) Photon counting histogram for onephoton excitation. Chemphyschem 4 (10):1121-1123. doi:10.1002/cphc. 200300824
18. Huang B, Perroud TD, Richard N (2004) Photon counting histogram: one-photon excitation. Chemphyschem 5:1523-1531
19. Palo K, Metz U, Jager S, Kask P, Gall K (2000) Fluorescence intensity multiple distributions analysis: concurrent determination of diffusion times and molecular brightness. Biophys J 79 (6):2858-2866
20. Perroud TD, Huang B, Zare RN (2005) Effect of bin time on the photon counting histogram for one-photon excitation. Chemphyschem 6 (5):905-912
21. Palo K, Mets U, Loorits V, Kask P (2006) Calculation of photon count number distributions via master equations. Biophys J 90:2179-2191
22. Gopich IV, Szabo A (2005) Photon counting histograms for diffusive fluorophores. J Phys Chem B 109:17683-17688
23. Skakun VV, Novikov EG, Apanasovich VV, Tanke HJ, Deelder AM, Mayboroda OA (2006) Initial guesses generation for fluorescence intensity distribution analysis. Eur Biophys J 35(5):410-423. doi:10.1007/s00249-006-0048-8
24. Visser AJWG, Laptenok SP, Visser NV, van Hoek A, Birch DJS, Brochon JC, Borst JW (2010) Time-resolved FRET fluorescence spectroscopy of visible fluorescent protein pairs. Eur Biophys J 39:241-253. doi:10.1007/s00249-009- 0528-8
25. Hink MA, Shah K, Russinova E, de Vries SC, Visser AJWG (2008) Fluorescence fluctuation analysis of Arabidopsis thaliana somatic embryogenesis receptor-like kinase and brassinosteroid insensitive 1 receptor oligomerization. Biophys J 94(3):1052-1062. doi:10.1529/biophysj.107.112003
26. Hink MA, Borst JW, Visser AJWG (2003) Fluorescence correlation spectroscopy of GFP fusion proteins in living plant cells. Methods Enzymol 361:93-112
27. Weisshart K, Jungel V, Briddon SJ (2004) The LSM 510 META-ConfoCor 2 system: an integrated imaging and spectroscopic platform for single-molecule detection. Curr Pharm Biotechnol 5:135-154
28. Marquardt DW (1963) An algorithm for least-squares estimation of non-linear parameters. J Soc Ind Appl Math 11:431-441
29. Skakun VV, Hink MA, Digris AV, Engel R, Novikov EG, Apanasovich VV, Visser AJ (2005) Global analysis of fluorescence fluctuation data. Eur Biophys J 34(4):323-334
30. Meng F, Ma H (2006) A comparison between photon counting histogram and fluorescence intensity distribution analysis. J Phys Chem B 110(51):25716-25720
31. Lau HT (1995) A numerical library in C for scientists and engineers, Symbolic and numeric computation series.CRCPress, Boca Raton, FL
32. Press WH, Teukolsky SA, Vetterling WT, Flannery BP (1992) Numerical recipes in C: the art of scientific computing, 2nd edn. Cambridge University Press, New York, NY
33. Skakun VV, Engel R, Digris AV, Borst JW, Visser AJ (2011) Global analysis of autocorrelation functions and photon counting distributions. Front Biosci (Elite Ed) 3:489-505, 264 [pii]
34. Bevington PR, Robinson DK (2003) Data reduction and error analysis for the physical sciences, 3rd edn. McGraw-Hill, New York, NY
35. Wohland T, Rigler R, Vogel H (2001) The standard deviation in fluorescence correlation spectroscopy. Biophys J 80(6):2987-2999. doi:10.1016/S0006-3495(01)76264-9, S000 6-3495(01)76264-9 [pii]
36. Malikova NP, Visser NV, van Hoek A, Skakun VV, Vysotski ES, Lee J, Visser AJ (2011) Green-fluorescent protein from the bioluminescent jellyfish Clytia gregaria is an obligate dimer and does not form a stable complex with the Ca(2+)-discharged photoprotein clytin. Biochemistry 50(20):4232-4241. doi:10. 1021/bi101671p
37. Dross N, Spriet C, Zwerger M, Muller G, Waldeck W, Langowski J (2009) Mapping eGFP oligomer mobility in living cell nuclei. PLoS One 4(4):e5041. doi:10.1371/journal.pone. 0005041
38. Korn GA, Korn TM (1968) Mathematical handbook for scientists and engineers. Definitions, theorems and formulas for reference and review. Second, enlarged and revised edition. McGraw-Hill Book Company, New York, NY
39. Beechem JM, Gratton E, Ameloot M, Knutson JR, Brand L (1991) Analysis of fluorescence intensity and anisotropy decay data: second generation theory and programs. In: Lakowicz JR (ed) Topics in fluorescence spectroscopy, vol 2.
40. Johnson ML, Faunt LM (1992) Parameter estimation by least-squares methods. Methods Enzymol 210:1-37