Towards digital photon counting cameras for single-molecule optical nanoscopy

Optical Nanoscopy

Volumn 3, Issue 1, 2014, Pages 1-11

  Krishnaswami, Venkataraman ^a,b   Van Noorden, Cornelis J F ^a   Manders, Erik M M ^a   Hoebe, Ron A ^b  

^a UNIVERSITY OF AMSTERDAM   (Netherlands)

^b UNIVERSITY OF AMSTERDAM   (Netherlands)

Author keywords

Live cell optical nanoscopy; Scientific cameras; SPAD arrays

Indexed keywords

AVALANCHE DIODES; DIFFRACTION; MOLECULES; PARTICLE BEAMS; PHOTONS; STOCHASTIC SYSTEMS;

DIFFRACTION LIMIT OF LIGHT; LIVE CELL; PHOTON-COUNTING CAMERAS; SCIENCE AND TECHNOLOGY; SINGLE PHOTON AVALANCHE DIODE; SINGLE PHOTON SENSITIVITY; SPAD ARRAY; TECHNOLOGICAL ADVANCEMENT;

CAMERAS;

EID: 84899549455     PISSN: None     EISSN: 21922853     Source Type: Journal    
DOI: 10.1186/2192-2853-3-1     Document Type: Article

References (47)

1. Barsic A, Piestun R (2013) Super-resolution of dense nanoscale emitters beyond the diffraction limit using spatial and temporal information. Appl Phys Lett 102:231103.
2. Basden AG, Haniff CA, Mackay CD (2003) Photon counting strategies with low-light-level CCDs. Mon Notices R Astron Soc 345:985-991.
3. Betzig E, Patterson GH, Sougrat R, Lindwasser OW, Olenych S, Bonifacino JS, Davidson MW, Lippincott-Schwartz J, Hess HF (2006) Imaging intracellular fluorescent proteins at nanometer resolution. Science 313:1642-1645.
4. Blanc N, Giffard P, Seitz P, Buchschacher P, Nguyen V, Hoheisel M (2009) Semiconductor Image Sensing. In: Zhang QG, Roosmalen A (eds) More than Moore: creating high value micro/nanoelectronics systems, 1st edn. Springer, US, pp 239-278.
5. Burri S, Stucki D, Maruyama Y, Bruschini C, Charbon E, Regazzoni F (2013) Jailbreak imagers: transforming a single-photon image sensor into a true random number generator. Paper presented at 14th International Image Sensor Workshop, Snowbird Resort, Utah, USA, pp 12-16.
6. Castelletto SA, Degiovanni IP, Schettini V, Migdall AL (2007) Reduced dead time and higher rate photon counting detection using a multiplexed detector array. J Mod Opt 54:337-352.
7. Chao J, Ram S, Ward ES, Ober RJ (2013) Ultrahigh accuracy imaging modality for super-localization microscopy. Nat Methods 10:335-338.
8. Charbon E (2007) Will avalanche photodiode arrays ever reach 1 megapixel? Paper presented at 11th International Image Sensor Workshop, Ogunquit, Maine, USA, pp 246-249.
9. Charbon E, Fishburn MW (2011) Monolithic Single-Photon Avalanche Diodes: SPADs. In: Seitz P, Theuwissen APJ (eds) Single-Photon Imaging Springer Series in Optical Sciences, vol 160. Springer, Berlin Heidelberg, pp 138-172.
10. Coudrain P, Henry D, Berthelot A, Charbonnier J, Verrun S, Franiatte R, Bouzaida N, Cibrario G, Calmony F, O'Connory I, Lacrevazz T, Fourneaudz L, Flechetz B, Chevrier N, Farcy A, Le-Briz O (2013) 3D Integration of CMOS image sensor with coprocessor using TSV last and micro-bumps technologies. In: Electronic Components and Technology Conference (ECTC). IEEE 63rd, Las Vegas, Nevada, USA, pp 674-682.
11. Cova SD, Ghioni M (2011) Single-photon counting detectors. IEEE Photonics J 3:274-277.
12. Cova S, Longoni A, Andreoni A (1981) Towards picosecond resolution with single-photon avalanche diodes. Rev Sci Instr 52:408-412.
13. Cova S, Longoni A, Ripamonti G (1982) Active-quenching and gating circuits for single-photon avalanche diodes (SPADS). IEEE Trans Nucl Sci 29:599-601.
14. Cova S, Ghioni M, Lacaita A, Samori C, Zappa F (1996) Avalanche photodiodes and quenching circuits for single-photon detection. Appl Opt 35:1956-1976.
15. Fishburn MW (2012) Fundamentals of CMOS single photon avalanche diodes. Dissertation, Delft University of Technology, Delft, The Netherlands
16. Flower B (2011) Single photon CMOS imaging through noise minimization. In: Seitz P, Theuwissen APJ (eds) Single-Photon Imaging Springer Series in Optical Sciences, vol 160. Springer, Berlin Heidelberg, pp 173-209.
17. Folling J, Bossi M, Bock H, Medda R, Wurm CA, Hein B, Jakobs S, Eggeling C, Hell SW (2008) Fluorescence nanoscopy by ground-state depletion and single-molecule return. Nat Methods 5:943-945.
18. Galbraith CG, Galbraith JA (2011) Super-resolution microscopy at a glance. J Cell Sci 124:1607-1611.
19. Gersbach M, Trimananda R, Maruyama Y, Fishburn M, Stoppa D, Richardson J, Walker R, Henderson RK, Charbon E (2010) High frame-rate TCSPC-FLIM using a novel SPAD-based image sensor. In: International Society for Optics and Photonics. SPIE NanoScience Engineering, San Diego, California, USA, pp 77801H-77801H
20. Grüll F, Kirchgessner M, Kaufmann R, Hausmann M, Kebschull U (2011) Accelerating Image Analysis For Localization Microscopy With FPGAs. 21st International Conference on Field Programmable Logic and Applications, Chania, Greece, pp 1-5.
21. Heilemann M (2010) Fluorescence microscopy beyond the diffraction limit. J Biotechnol 149:243-251.
22. Heilemann M, van de Linde S, Schuttpelz M, Kasper R, Seefeldt B, Mukherjee A, Tinnefeld P, Sauer M (2008) Subdiffraction-resolution fluorescence imaging with conventional fluorescent probes. Angew Chem Int Ed Engl 47:6172-6176.
23. Hell SW (2009) Microscopy and its focal switch. Nat Methods 6:24-32.
24. Hess ST, Girirajan TP, Mason MD (2006) Ultra-high resolution imaging by fluorescence photoactivation localization microscopy. Biophys J 91:4258-4272.
25. Huang F, Hartwich TM, Rivera-Molina FE, Lin Y, Duim WC, Long JJ, Uchil PD, Myers JR, Baird MA, Mothes W, Davidson MW, Toomre D, Bewersdorf J (2013) Video-rate nanoscopy using sCMOS camera-specific single-molecule localization algorithms. Nat Methods 10:653-658.
26. Jones SA, Shim SH, He J, Zhuang X (2011) Fast, three-dimensional superresolution imaging of live cells. Nat Methods 8:499-505.
27. Lakadamyali M (2013) Super-resolution microscopy: going live and going fast. J Chem Phys Chem, 15:630-636.
28. Li DU, Arlt J, Tyndall D, Walker R, Richardson J, Stoppa D, Charbon E, Henderson RK (2011) Video-rate fluorescence lifetime imaging camera with CMOS single-photon avalanche diode arrays and high-speed imaging algorithm. J Biomed Opt 16:096012.
29. Lukinavicius G, Umezawa K, Olivier N, Honigmann A, Yang G, Plass T, Mueller V, Reymond L, Correa IR Jr, Luo Z, Schultz C, Lemke EA, Heppenstall P, Eggeling C, Manley S, Johnsson K (2013) A near-infrared fluorophore for live-cell superresolution microscopy of cellular proteins. Nat Chem 5:132-139.
30. Ma H, Kawai H, Toda E, Zeng S, Huang ZL (2013) Localization-based superresolution microscopy with an sCMOS camera part III: camera embedded data processing significantly reduces the challenges of massive data handling. Opt Letters 38:1769-1771.
31. Mortensen KI, Churchman LS, Spudich JA, Flyvbjerg H (2010) Optimized localization analysis for single-molecule tracking and super-resolution microscopy. Nat Methods 7:377-381.
32. Niclass C, Rochas A, Besse PA, Charbon E (2005) Design and characterization of a CMOS 3-D image sensor based on single photon avalanche diodes. IEEE J Solid State Circuits 40:1847-1854.
33. Niclass C, Favi C, Kluter T, Gersbach M, Charbon E (2008) A 128 × 128 singlephoton image sensor with column-level 10-bit time-to-digital converter array. IEEE J Sol State Circuits 43:2977-2989.
34. Ober RJ, Ram S, Ward ES (2004) Localization accuracy in single molecule microscopy. Biophys J 86:185-1200.
35. Powolny F, Burri S, Bruschini C, Michalet X, Regazzoni F, Charbon E (2013) Comparison of two cameras based on single photon avalanche diodes (SPADS) for fluorescence lifetime imaging application with picosecond resolution. 14th International Image Sensor Workshop, Snowbird Resort, Utah, USA, p 100:25-50.
36. Quan T, Zeng S, Huang Z-L (2010) Localization capability and limitation of electron-multiplying charge-coupled, scientific complementary metal-oxide semiconductor, and charge-coupled devices for superresolution imaging. J Biomed Opt 15:066005.
37. Rieger B, Stallinga S (2013) The lateral and axial localization uncertainty in superresolution light microscopy. J Chem Phys Chem, 10.1002/cphc.201300711.
38. Ries J, Kaplan C, Platonova E, Eghlidi H, Ewers H (2012) A simple, versatile method for GFP-based super-resolution microscopy via nanobodies. Nat Methods 9:582-584.
39. Robbins MS (2011) Electron-Multiplying Charge Coupled Devices - EMCCDs. In: Seitz P, Theuwissen APJ (eds) Single-Photon Imaging Springer Series in Optical Sciences, vol 160. Springer, Berlin Heidelberg, pp 103-121.
40. Robbins MS, Hadwen BJ (2003) The noise performance of electron multiplying charge-coupled devices. IEEE Trans Electron Dev 50:1227-1232.
41. Rochas A (2003) Single photon avalanche diodes in CMOS technology, Dissertation. École Polytechnique Fédérale de Lausanne, Lausanne, Switzerland
42. Rochas A, Gani M, Furrer B, Besse PA, Popovic RS, Ribordy G, Gisin N (2003) Single photon detector fabricated in a complementary metal-oxide-semiconductor high-voltage technology. Rev Sci Instrum 74:3263.
43. Rust MJ, Bates M, Zhuang X (2006) Sub-diffraction-limit imaging by stochastic optical reconstruction microscopy (STORM). Nat Methods 3:793-795.
44. Sauer M (2013) Localization microscopy coming of age: from concepts to biological impact. J Cell Sci 126:3505-3513.
45. Stallinga S, Rieger B (2010) Accuracy of the gaussian point spread function model in 2d localization microscopy. Opt Express 18:24461-24476.
46. Stoppa D, Mosconi D, Pancheri L, Gonzo L (2009) Single-photon avalanche diode CMOS sensor for time-resolved fluorescence measurements. IEEE Sensors J 9:1084-1090.
47. Veerappan C, Richardson J, Walker R, Li DU, Fishburn MW, Maruyama Y, Stoppa D, Borghetti F, Gersbach M, Henderson KR, Charbon E (2011) A 160× 128 single-photon image sensor with on-pixel 55ps 10b time-todigital converter. 58th International Solid-state Circuits Conference (ISSCC), San Francisco, California, USA, pp 20-24