Methods, Fluorophores, and Review

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Nat Rev Mol Cell Biol. 2002 Dec;3(12):906-18. Creating new fluorescent probes for cell biology. Zhang J, Campbell RE, Ting AY, Tsien RY.
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Methods. 2002 Aug;27(4):340-8. Photobleaching fluorescence resonance energy transfer reveals ligand-induced oligomer formation of human somatostatin receptor subtypes. Patel RC, Lange DC, Patel YC.
Biophys J. 2002 Sep;83(3):1631-49. Dynamic fluorescence anisotropy imaging microscopy in the frequency domain (rFLIM). Clayton AH, Hanley QS, Arndt-Jovin DJ, Subramaniam V, Jovin TM.
Anal Chem. 2002 Jul 15;74(14):3511-7. High-resolution colocalization of single dye molecules by fluorescence lifetime imaging microscopy. Heilemann M, Herten DP, Heintzmann R, Cremer C, Muller C, Tinnefeld P, Weston KD, Wolfrum J, Sauer M.
Biophys J. 2002 Jul;83(1):407-15. Spectroscopy of single phycoerythrocyanin monomers: dark state identification and observation of energy transfer heterogeneities. Zehetmayer P, Hellerer T, Parbel A, Scheer H, Zumbusch A.
Drug Discov Today. 2003 Dec 1;8(23):1085-93. Confocal optics microscopy for biochemical and cellular high-throughput screening. Zemanov¦Á L, Schenk A, Valler MJ, Nienhaus GU, Heilker R.
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Nat Biotechnol. 2003 Nov;21(11):1387-95. FRET imaging. Jares-Erijman EA, Jovin TM.
Curr Opin Chem Biol. 2003 Oct;7(5):635-40. Analysis of protein interactions using fluorescence technologies. Yan Y, Marriott G.
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Biochem Soc Trans. 2003 Oct;31(Pt 5):1020-7. Imaging molecular interactions in cells by dynamic and static fluorescence anisotropy (rFLIM and emFRET). Lidke DS, Nagy P, Barisas BG, Heintzmann R, Post JN, Lidke KA, Clayton AH, Arndt-Jovin DJ, Jovin TM.
Cytometry A. 2003 Oct;55(2):71-85. A flow cytometric method to detect protein-protein interaction in living cells by directly visualizing donor fluorophore quenching during CFP-->YFP fluorescence resonance energy transfer (FRET). He L, Olson DP, Wu X, Karpova TS, McNally JG, Lipsky PE.
Cancer Res. 2003 Sep 1;63(17):5194-7. Fluorescence resonance energy transfer reveals a binding site of a photosensitizer for photodynamic therapy. Morris RL, Azizuddin K, Lam M, Berlin J, Nieminen AL, Kenney ME, Samia AC, Burda C, Oleinick NL.
J Biomed Opt. 2003 Jul;8(3):368-75. Fluorescence resonance energy transfer determinations using multiphoton fluorescence lifetime imaging microscopy to characterize amyloid-beta plaques. Bacskai BJ, Skoch J, Hickey GA, Allen R, Hyman BT.
J Biomed Opt. 2003 Jul;8(3):362-7. Quantitative imaging of protein-protein interactions by multiphoton fluorescence lifetime imaging microscopy using a streak camera. Krishnan RV, Masuda A, Centonze VE, Herman B.
J Biomed Opt. 2003 Jul;8(3):357-61. Spectroscopic approach for monitoring two-photon excited fluorescence resonance energy transfer from homodimers at the subcellular level. LaMorte VJ, Zoumi A, Tromberg BJ.
J Biomed Opt. 2003 Jul;8(3):347-56. Illuminating protein interactions in tissue using confocal and two-photon excitation fluorescent resonance energy transfer microscopy. Mills JD, Stone JR, Rubin DG, Melon DE, Okonkwo DO, Periasamy A, Helm GA.
J Biomed Opt. 2003 Jul;8(3):339-46. One- and two-photon fluorescence resonance energy transfer microscopy to establish a clustered distribution of receptor-ligand complexes in endocytic membranes. Wallrabe H, Stanley M, Periasamy A, Barroso M.
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J Microsc. 2003 Jul;211(Pt 1):19-29. Variable-angle total internal reflection fluorescence microscopy (VA-TIRFM): realization and application of a compact illumination device. Stock K, Sailer R, Strauss WS, Lyttek M, Steiner R, Schneckenburger H.
Biophys J. 2003 Jul;85(1):599-611. DsRed as a potential FRET partner with CFP and GFP. Erickson MG, Moon DL, Yue DT.
FEBS Lett. 2003 Jul 3;546(1):87-92. Spectral imaging and its applications in live cell microscopy. Zimmermann T, Rietdorf J, Pepperkok R.
Curr Opin Nephrol Hypertens. 2003 Jul;12(4):455-61. Novel light microscopy imaging techniques in nephrology. Bacallao RL, Yu W, Dunn KW, Phillips CL.
Biophys J. 2003 Jun;84(6):4053-61. Single molecule detection of DNA looping by NgoMIV restriction endonuclease. Katiliene Z, Katilius E, Woodbury NW.
Cytometry A. 2003 May;53(1):39-54. Flow cytometric measurement of fluorescence (F¦Õrster) resonance energy transfer from cyan fluorescent protein to yellow fluorescent protein using single-laser excitation at 458 nm. He L, Bradrick TD, Karpova TS, Wu X, Fox MH, Fischer R, McNally JG, Knutson JR, Grammer AC, Lipsky PE.
Nat Mater. 2003 Apr;2(4):210-1. Nanoparticle waveguides: Watching energy transfer. Krenn JR.
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J Cell Biol. 2003 Mar 3;160(5):629-33. Fluorescence resonance energy transfer (FRET) microscopy imaging of live cell protein localizations. Sekar RB, Periasamy A.
Annu Rev Biophys Biomol Struct. 2003;32:161-82. Epub 2003 Feb 11. The power and prospects of fluorescence microscopies and spectroscopies. Michalet X, Kapanidis AN, Laurence T, Pinaud F, Doose S, Pflughoefft M, Weiss S.
Ann Anat. 2003 Jan;185(1):1-20. Modern laser scanning microscopy in biology, biotechnology and medicine. Halbhuber KJ, K¦Õnig K.
Cytometry A. 2003 Mar;52(1):1-11. Quantitative image analysis of cellular protein translocation induced by magnetic microspheres: application to the EGF receptor. Brock R, Jovin TM.
Methods. 2003 Jan;29(1):58-73. Characterization of one- and two-photon excitation fluorescence resonance energy transfer microscopy. Elangovan M, Wallrabe H, Chen Y, Day RN, Barroso M, Periasamy A.
J Microsc. 2003 Jan;209(Pt 1):56-70. Fluorescence resonance energy transfer from cyan to yellow fluorescent protein detected by acceptor photobleaching using confocal microscopy and a single laser. Karpova TS, Baumann CT, He L, Wu X, Grammer A, Lipsky P, Hager GL, McNally JG.
J Microsc. 2003 Jan;209(Pt 1):1-7. Evaluation of global analysis algorithms for single frequency fluorescence lifetime imaging microscopy data. Verveer PJ, Bastiaens PI.
Biophys J. 2003 Jan;84(1):612-22. Simultaneous optical and electrical recording of single gramicidin channels. Borisenko V, Lougheed T, Hesse J, Fόreder-Kitzmόller E, Fertig N, Behrends JC, Woolley GA, Schόtz GJ.
Curr Protoc Cell Biol. 2004 Dec;Chapter 4:Unit 4.14. Fluorescence lifetime imaging microscopy. Esposito A, Wouters FS.
Nat Methods. 2004 Dec;1(3):209-17. Epub 2004 Nov 18. Three-chromophore FRET microscopy to analyze multiprotein interactions in living cells. Galperin E, Verkhusha VV, Sorkin A.
Microsc Res Tech. 2004 Nov;65(4-5):169-79. Ensemble and single particle photophysical properties (two-photon excitation, anisotropy, FRET, lifetime, spectral conversion) of commercial quantum dots in solution and in live cells. Grecco HE, Lidke KA, Heintzmann R, Lidke DS, Spagnuolo C, Martinez OE, Jares-Erijman EA, Jovin TM.
Photochem Photobiol Sci. 2005 Jan;4(1):13-22. Epub 2004 Nov 11. Time-resolved fluorescence microscopy. Suhling K, French PM, Phillips D.
Biophys J. 2005 Feb;88(2):L14-6. Epub 2004 Dec 21. High-contrast imaging of fluorescent protein FRET by fluorescence polarization microscopy. Rizzo MA, Piston DW.
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Biophys J. 2005 Feb;88(2):1224-37. Epub 2004 Nov 5. Multiphoton-FLIM quantification of the EGFP-mRFP1 FRET pair for localization of membrane receptor-kinase interactions.
Cell Biochem Biophys. 2004;41(3):391-414. Optical techniques for imaging membrane topography. Parthasarathy R, Groves JT.
Nat Biotechnol. 2004 Nov;22(11):1435-9. Epub 2004 Oct 24. Photoswitchable cyan fluorescent protein for protein tracking. Chudakov DM, Verkhusha VV, Staroverov DB, Souslova EA, Lukyanov S, Lukyanov KA.
Biophys J. 2004 Oct;87(4):2787-97. Polarized fluorescence resonance energy transfer microscopy. Mattheyses AL, Hoppe AD, Axelrod D.
Int Rev Cytol. 2004;237:205-77. Visualization of molecular activities inside living cells with fluorescent labels. Bunt G, Wouters FS.
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J Microsc. 2004 Aug;215(Pt 2):162-73. Quantitative fluorescence resonance energy transfer (FRET) measurement with acceptor photobleaching and spectral unmixing. Gu Y, Di WL, Kelsell DP, Zicha D.
Philos Transact A Math Phys Eng Sci. 2004 Apr 15;362(1817):901-19. Fluorescence resonance energy transfer scanning near-field optical microscopy. Sekatskii SK.
Biophys J. 2004 Aug;87(2):1360-8. Na/K pump-induced [Na](i) gradients in rat ventricular myocytes measured with two-photon microscopy. Despa S, Kocksk¦Ämper J, Blatter LA, Bers DM.
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Proc Natl Acad Sci U S A. 2004 Aug 3;101(31):11298-303. Epub 2004 Jul 26. Nanometer-localized multiple single-molecule fluorescence microscopy. Qu X, Wu D, Mets L, Scherer NF.
J Chem Phys. 2004 Jun 15;120(23):10867-70. Three-dimensional orientational colocalization of individual donor--acceptor pairs. Hubner CG, Ksenofontov V, Nolde F, Mullen K, Basche T.
Proc Natl Acad Sci U S A. 2004 Jul 20;101(29):10554-9. Epub 2004 Jul 9. Expanded dynamic range of fluorescent indicators for Ca(2+) by circularly permuted yellow fluorescent proteins. Nagai T, Yamada S, Tominaga T, Ichikawa M, Miyawaki A.
Opt Lett. 2004 Jun 15;29(12):1354-6. Two-color two-photon 4Pi fluorescence microscopy.Eur Biophys J. 2005 Feb;34(1):82-90. Epub 2004 Jun 30. Dual-channel photobleaching FRET microscopy for improved resolution of protein association states in living cells.
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Eur Biophys J. 2005 Feb;34(1):82-90. Epub 2004 Jun 30. Dual-channel photobleaching FRET microscopy for improved resolution of protein association states in living cells. Clayton AH, Klonis N, Cody SH, Nice EC.
J Microsc. 2004 Jul;215(Pt 1):1-12. Multi-dimensional time-correlated single photon counting (TCSPC) fluorescence lifetime imaging microscopy (FLIM) to detect FRET in cells. Duncan RR, Bergmann A, Cousin MA, Apps DK, Shipston MJ.
Biol Proced Online. 2004;6:78-82. Epub 2004 May 12. Fluorescence Resonance Energy Transfer (FRET) as a method to calculate the dimerization strength of basic Helix-Loop-Helix (bHLH) proteins. Centonze VE, Firulli BA, Firulli AB.
Methods. 2004 Aug;33(4):281-6. Using GFP to image peptide hormone and neuropeptide release in vitro and in vivo. Levitan ES.
Biol Cell. 2004 Apr;96(3):231-6. Imaging molecular interactions by multiphoton FLIM. Peter M, Ameer-Beg SM.
Curr Pharm Biotechnol. 2004 Jun;5(3):299-308. Time-resolved confocal fluorescence imaging and spectrocopy system with single molecule sensitivity and sub-micrometer resolution. Wahl M, Koberling F, Patting M, Rahn H, Erdmann R.
Methods Mol Biol. 2004;284:259-70. Measuring dynamic changes in cAMP using fluorescence resonance energy transfer. Evellin S, Mongillo M, Terrin A, Lissandron V, Zaccolo M.
Curr Pharm Biotechnol. 2004 Apr;5(2):231-41. Parallel confocal detection of single biomolecules using diffractive optics and integrated detector units. Blom H, G¦Õsch M.\
Curr Opin Plant Biol. 2004 Jun;7(3):345-51. Minimally invasive dynamic imaging of ions and metabolites in living cells. Fehr M, Ehrhardt DW, Lalonde S, Frommer WB.
Annu Rev Phys Chem. 2004;55:585-611. Single-molecule optics. Kulzer F, Orrit M.
J Struct Biol. 2004 Jul;147(1):62-9. Red-edge anisotropy microscopy enables dynamic imaging of homo-FRET between green fluorescent proteins in cells. Squire A, Verveer PJ, Rocks O, Bastiaens PI.
Luminescence. 2004 Mar-Apr;19(2):85-93. Antisense activity detection by inhibition of fluorescence resonance energy transfer. Ben¦Ítez-Hess ML, DiPaolo JA, Alvarez-Salas LM.
Proc Natl Acad Sci U S A. 2004 Apr 27;101(17):6462-5. Epub 2004 Apr 19. Single-molecule high-resolution imaging with photobleaching. Gordon MP, Ha T, Selvin PR.
Circ Res. 2004 Apr 16;94(7):866-73. Use of chimeric fluorescent proteins and fluorescence resonance energy transfer to monitor cellular responses. Zaccolo M.
Am J Physiol Renal Physiol. 2004 Aug;287(2):F329-35. Epub 2004 Apr 13. Real-time imaging of renin release in vitro. Peti-Peterdi J, Fintha A, Fuson AL, Tousson A, Chow RH.
Methods Mol Biol. 2004;261:351-70. Microscopic analysis of fluorescence resonance energy transfer (FRET). Herman B, Krishnan RV, Centonze VE.
Biophys J. 2004 Apr;86(4):2517-29. Correcting confocal acquisition to optimize imaging of fluorescence resonance energy transfer by sensitized emission. van Rheenen J, Langeslag M, Jalink K.
Nat Biotechnol. 2004 Apr;22(4):445-9. Epub 2004 Feb 29. An improved cyan fluorescent protein variant useful for FRET. Rizzo MA, Springer GH, Granada B, Piston DW.
Nat Biotechnol. 2004 Mar;22(3):289-96. The molecular properties and applications of Anthozoa fluorescent proteins and chromoproteins. Verkhusha VV, Lukyanov KA.
Front Biosci. 2004 May 1;9:1598-610. Applications of multi-photon microscopy in cell physiology.Methods Mol Biol. 2004;263:333-44. Fluorescence resonance energy transfer-based HIV-1 virion fusion assay.
Methods Mol Biol. 2004;263:333-44. Fluorescence resonance energy transfer-based HIV-1 virion fusion assay. Cavrois M, Neidleman J, Bigos M, Greene WC.Cavrois M, Neidleman J, Bigos M, Greene WC. Niggli E, Egger M.
Biochemistry. 2004 Feb 17;43(6):1685-93. Cholesterol crystal nucleation from enzymatically modified low-density lipoproteins: combined effect of sphingomyelinase and cholesterol esterase. Guarino AJ, Tulenko TN, Wrenn SP.
Biophys J. 2004 Jan;86(1 Pt 1):506-16. Triple-color coincidence analysis: one step further in following higher order molecular complex formation. Heinze KG, Jahnz M, Schwille P.
J Microsc. 2004 Jan;213(Pt 1):46-62.- Optimizing imaging parameters for the separation of multiple labels in a fluorescence image. Neher R, Neher E.
J Microsc. 2004 Jan;213(Pt 1):1-5. Graphical representation and multicomponent analysis of single-frequency fluorescence lifetime imaging microscopy data.
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Curr Protoc Cytom. 2005 Feb;Chapter 12:Unit 12.3. Modern confocal microscopy. Rajwa B.
Nucleic Acids Symp Ser (Oxf). 2005;(49):207-8. Development of real time imaging of specific messenger RNA in a living cell using artificial antisense nucleic acids. Okabe K, Ikeda H, Harada Y, Funatsu T.
J Phys Chem B. 2005 Aug 25;109(33):15691-8. Simultaneous time- and wavelength-resolved fluorescence microscopy of single molecules. Luong AK, Gradinaru CC, Chandler DW, Hayden CC.
Methods Enzymol. 2005;403:119-34. Visualization of Rab5 activity in living cells using FRET microscopy.
J Fluoresc. 2005 Sep;15(5):707-21. Improved fluorescent proteins for single-molecule research in molecular tracking and co-localization. Steinmeyer R, Noskov A, Krasel C, Weber I, Dees C, Harms GS. Galperin E, Sorkin A.
Biochim Biophys Acta. 2005 Dec 30;1746(3):221-33. Epub 2005 Aug 25. Use of Forster's resonance energy transfer microscopy to study lipid rafts. Rao M, Mayor S.
Trends Biotechnol. 2005 Dec;23(12):605-13. Epub 2005 Nov 2. Fluorescent proteins as a toolkit for in vivo imaging. Chudakov DM, Lukyanov S, Lukyanov KA.
J Gen Physiol. 2005 Nov;126(5):429-38. Generation of functional fluorescent BK channels by random insertion of GFP variants. Giraldez T, Hughes TE, Sigworth FJ.
J Biol Chem. 2006 Jan 6;281(1):608-16. Epub 2005 Oct 24. Biosensors to measure inositol 1,4,5-trisphosphate concentration in living cells with spatiotemporal resolution. Remus TP, Zima AV, Bossuyt J, Bare DJ, Martin JL, Blatter LA, Bers DM, Mignery GA.
J Biomed Opt. 2005 May-Jun;10(3):034008. Application of microscopic Forster resonance energy transfer to cytological diagnosis of the thyroid tumors. Murata S, Herman P, Iwashina M, Mochizuki K, Nakazawa T, Kondo T, Nakamura N, Lakowicz JR, Katoh R.
Proc Natl Acad Sci U S A. 2005 Oct 25;102(43):15471-6. Epub 2005 Oct 12. Single-molecule Forster resonance energy transfer study of protein dynamics under denaturing conditions. Kuzmenkina EV, Heyes CD, Nienhaus GU.
Clin Hemorheol Microcirc. 2005;33(3):293-302. New tool to monitor membrane potential by FRET Voltage Sensitive Dye (FRET-VSD) using Spectral and Fluorescence Lifetime Imaging Microscopy (FLIM). Interest in cell engineering. Dumas D, Stoltz JF.
Microsc Res Tech. 2005 Sep;68(1):51-8. PixFRET, an ImageJ plug-in for FRET calculation that can accommodate variations in spectral bleed-throughs. Feige JN, Sage D, Wahli W, Desvergne B, Gelman L.
Chemistry. 2005 Dec 9;11(24):7294-304. Three distinct read-out modes for enzyme activity can operate in a semi-wet supramolecular hydrogel. Tamaru S, Kiyonaka S, Hamachi I.
Biophys J. 2005 Dec;89(6):3822-36. Epub 2005 Sep 30. A flexible approach to the calculation of resonance energy transfer efficiency between multiple donors and acceptors in complex geometries. Corry B, Jayatilaka D, Rigby P.
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Cytometry A. 2005 Oct;67(2):119-28. Computer program for analyzing donor photobleaching FRET image series. Szentesi G, Vereb G, Horv¦Áth G, Bodn¦Ár A, F¦Ábi¦Án A, Matk¦Ò J, G¦Ásp¦Ár R, Damjanovich S, M¦Átyus L, Jenei A.
Cytometry A. 2005 Oct;67(2):112-8. Fluorescence lifetime imaging in an optically sectioning programmable array microscope (PAM). Hanley QS, Lidke KA, Heintzmann R, Arndt-Jovin DJ, Jovin TM.
Biophys Chem. 2006 Jan 20;119(2):121-6. Epub 2005 Sep 12. Lipophilic porphyrin microparticles induced by AOT reverse micelles: a fluorescence lifetime imaging study. Togashi DM, Costa SM, Sobral AJ.
Biophys J. 2005 Nov;89(5):3508-22. Epub 2005 Aug 19. Pulsed interleaved excitation. Mόller BK, Zaychikov E, Br¦Äuchle C, Lamb DC.
J Am Chem Soc. 2005 Aug 24;127(33):11851-62. Phosphorescent oxygen sensor with dendritic protection and two-photon absorbing antenna. Bri¦Ñas RP, Troxler T, Hochstrasser RM, Vinogradov SA.
J Am Chem Soc. 2005 Aug 24;127(33):11835-41. Cooperation between artificial receptors and supramolecular hydrogels for sensing and discriminating phosphate derivatives. Yamaguchi S, Yoshimura I, Kohira T, Tamaru S, Hamachi I.
Biophys J. 2005 Nov;89(5):3470-9. Epub 2005 Aug 12. Single-molecule FRET studies of important intermediates in the nucleocapsid-protein-chaperoned minus-strand transfer step in HIV-1 reverse transcription. Liu HW, Cosa G, Landes CF, Zeng Y, Kovaleski BJ, Mullen DG, Barany G, Musier-Forsyth K, Barbara PF.
Biophys J. 2005 Oct;89(4):2736-49. Epub 2005 Jul 22. Quantitative multiphoton spectral imaging and its use for measuring resonance energy transfer. Thaler C, Koushik SV, Blank PS, Vogel SS.
Chembiochem. 2005 Aug;6(8):1323-30. Multiparameter imaging for the analysis of intracellular signaling. Schultz C, Schleifenbaum A, Goedhart J, Gadella TW Jr.
Annu Rev Biomed Eng. 2005;7:55-76. Quantum dots as cellular probes. Alivisatos AP, Gu W, Larabell C.
J Microsc. 2005 Jun;218(Pt 3):253-62. Fluorescence resonance energy transfer (FRET) measurement by gradual acceptor photobleaching. Van Munster EB, Kremers GJ, Adjobo-Hermans MJ, Gadella TW Jr.
Proc Natl Acad Sci U S A. 2005 Jun 14;102(24):8740-5. Epub 2005 Jun 6. Detection of glutamate release from neurons by genetically encoded surface-displayed FRET nanosensors. Okumoto S, Looger LL, Micheva KD, Reimer RJ, Smith SJ, Frommer WB.
Nat Mater. 2005 Jun;4(6):435-46. Quantum dot bioconjugates for imaging, labelling and sensing. Medintz IL, Uyeda HT, Goldman ER, Mattoussi H.
Biochim Biophys Acta. 2005 Jul 10;1744(3):259-72. Imaging the secretory pathway: the past and future impact of live cell optical techniques. Presley JF.
Chemphyschem. 2005 May;6(5):956-60. Single-molecule quantum-dot fluorescence resonance energy transfer. Hohng S, Ha T.
Chemphyschem. 2005 May;6(5):838-49. Green and red fluorescent proteins: photo- and thermally induced dynamics probed by site-selective spectroscopy and hole burning. Bonsma S, Purchase R, Jezowski S, Gallus J, K¦Õnz F, V¦Õlker S.
Trends Neurosci. 2005 May;28(5):217-9. A multi-photon window onto neuronal-glial-vascular communication. Hirase H.
Biochemistry. 2005 May 10;44(18):7085-94. Reversible photobleaching of enhanced green fluorescent proteins. Sinnecker D, Voigt P, Hellwig N, Schaefer M.
Biochem Biophys Res Commun. 2005 May 13;330(3):914-20. A new pair for inter- and intra-molecular FRET measurement. Yang X, Xu P, Xu T.
Mol Endocrinol. 2005 Jul;19(7):1675-86. Epub 2005 Mar 10. Imaging molecular interactions in living cells. Day RN, Schaufele F.
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