Calculation of photon counting distribution in fluorescence intensity fluctuations registration systems
Abstract
The study of the molecular composition of a substance based on the calculation of photon counting distribution is an effective method for analysing experimental data in fluorescence fluctuation spectroscopy. This method is non-invasive and makes it possible to resolve the processes of dimerisation of molecular complexes in living cells, which is in demand in biology, medicine and pharmaceuticals. Obtaining a theoretical photon counting distribution is a complicated task in both algorithmic and computational sense. In this paper, a comparative analysis of the three main methods for calculating photon counting distribution is carried out and an effective method for its calculating is proposed, which guarantees the correct calculation of photon counting distribution over the entire range of variation of the model parameters and the width of the counting time interval. The derivation of all expressions is given for the case of a Gaussian approximation of the brightness profile with correction for out-of-focus emission and normalisation to the first two moments of the profile. Other ways of approximating the brightness profile and normalising the estimated parameters can be made similarly. The proposed technique is implemented in FFS Data Processor software package, which is designed for a global analysis of photocounts in fluorescence fluctuation spectroscopy and allows efficient calculation of photon counting distribution in a wide range of estimated parameters.
References
- Kitamura A, Kinjo M. State-of-the-art fluorescence fluctuation-based spectroscopic techniques for the study of protein aggregation. International Journal of Molecular Sciences. 2018;19(4):964. DOI: 10.3390/IJMS19040964.
- Elson EL, Magde D. Fluorescence correlation spectroscopy. I. Conceptual basis and theory. Biopolymers. 1974;13(1):1–27. DOI: 10.1002/BIP.1974.360130102.
- Yu Lan, Lei Yunze, Ma Ying, Liu Min, Zheng Juanjuan, Dan Dan, et al. A comprehensive review of fluorescence correlation spectroscopy. Frontiers of Physics. 2021;9:644450. DOI: 10.3389/FPHY.2021.644450.
- Nederveen-Schippers LM, Pathak P, Keizer-Gunnink I, Westphal AH, van Haastert PJM, Borst JW, et al. Combined FCS and PCH analysis to quantify protein dimerization in living cells. International Journal of Molecular Sciences. 2021;22(14):7300. DOI: 10.3390/IJMS22147300.
- Elson EL. Fluorescence correlation spectroscopy: past, present, future. Biophysical Journal. 2011;101(12):2855–2870. DOI: 10.1016/j.bpj.2011.11.012.
- Kask P, Palo K, Ullmann D, Gall K. Fluorescence-intensity distribution analysis and its application in biomolecular detection technology. PNAS. 1999;96(24):13756–13761. DOI: 10.1073/pnas.96.24.13756.
- Palo K, Mets Ü, Jäger S, Kask P, Gall K. Fluorescence intensity multiple distributions analysis: concurrent determination of diffusion times and molecular brightness. Biophysical Journal. 2000;79(6):2858–2866. DOI: 10.1016/S0006-3495(00)76523-4.
- Chen Y, Müller JD, So PTC, Gratton E. The photon counting histogram in fluorescence fluctuation spectroscopy. Biophysical Journal. 1999;77(1):553–567. DOI: 10.1016/S0006-3495(99)76912-2.
- Huang B, Perroud TD, Zare RN. Photon counting histogram: one-photon excitation. ChemPhysChem. 2004;5(10):1523–1531. DOI: 10.1002/cphc.200400176.
- Perroud TD, Huang B, Zare RN. Effect of bin time on the photon counting histogram for one-photon excitation. ChemPhysChem. 2005;6(5):905–912. DOI: 10.1002/cphc.200400547.
- Müller JD. Cumulant analysis in fluorescence fluctuation spectroscopy. Biophysical Journal. 2004;86(6):3981–3992. DOI: 10.1529/biophysj.103.037887.
- Wu B, Singer RH, Mueller JD. Time-integrated fluorescence cumulant analysis and its application in living cells. In: Tetin SY, editor. Fluorescence fluctuation spectroscopy (FFS). Part A. [S. l.]: Academic Press; 2013. p. 99–119 (Methods in enzymology; volume 518). DOI: 10.1016/B978-0-12-388422-0.00005-4.
- Skakun VV, Novikov EG, Apanasovich TV, Apanasovich VV. Fluorescence cumulants analysis with non-ideal observation profiles. Methods and Applications in Fluorescence. 2015;3(4):045003. DOI: 10.1088/2050-6120/3/4/045003.
- Meng F, Ma H. A comparison between photon counting histogram and fluorescence intensity distribution analysis. The Journal of Physical Chemistry B. 2006;110(51):25716–25720. DOI: 10.1021/jp063845r.
- Skakun VV, Apanasovich VV. [Photon counting distribution analysis with brightness profile correction in single molecule fluctuation spectroscopy]. Vestnik Belorusskogo gosudarstvennogo universiteta. Seriya 1, Fizika. Matematika. Informatika. 2008;2:31–35. Russian.
- Skakun VV, Novikov EG, Apanasovich VV, Tanke HJ, Deelder AM, Mayboroda OA. Initial guesses generation for fluorescence intensity distribution analysis. European Biophysics Journal. 2006;35(5):410–423. DOI: 10.1007/s00249-006-0048-8.
- Marquardt DW. An algorithm for least-squares estimation of nonlinear parameters. Journal of the Society for Industrial and Applied Mathematics. 1963;11(2):431–441. DOI: 10.1137/0111030.
- Skakun VV, Digris AV, Apanasovich VV. Global analysis of autocorrelation functions and photon counting distributions in fluorescence fluctuation spectroscopy. In: Engelborghs Y, Visser AJWG, editors. Fluorescence spectroscopy and microscopy: methods and protocols. [S. l.]: Humana Press; 2014. p. 719–741 (Methods in molecular biology; volume 1076). DOI: 10.1007/978-1-62703-649-8_33.
- Rigler R, Mets Ü, Widengren J, Kask P. Fluorescence correlation spectroscopy with high count rate and low background: analysis of translational diffusion. European Biophysics Journal. 1993;22(3):169–175. DOI: 10.1007/BF00185777.
- Hess ST, Webb WW. Focal volume optics and experimental artifacts in confocal fluorescence correlation spectroscopy. Biophysical Journal. 2002;83(4):2300–2317. DOI: 10.1016/S0006-3495(02)73990-8.
- Palo K, Mets Ü, Loorits V, Kask P. Calculation of photon-count number distributions via master equations. Biophysical Journal. 2006;90(6):2179–2191. DOI: 10.1529/biophysj.105.066084.
Copyright (c) 2023 Journal of the Belarusian State University. Physics
This work is licensed under a Creative Commons Attribution-NonCommercial 4.0 International License.
The authors who are published in this journal agree to the following:
- The authors retain copyright on the work and provide the journal with the right of first publication of the work on condition of license Creative Commons Attribution-NonCommercial. 4.0 International (CC BY-NC 4.0).
- The authors retain the right to enter into certain contractual agreements relating to the non-exclusive distribution of the published version of the work (e.g. post it on the institutional repository, publication in the book), with the reference to its original publication in this journal.
- The authors have the right to post their work on the Internet (e.g. on the institutional store or personal website) prior to and during the review process, conducted by the journal, as this may lead to a productive discussion and a large number of references to this work. (See The Effect of Open Access.)