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Saitgalina MA, Ostankova YV, Liubimova NE, Semenov AV, Kuznetsova RN, Totolian AA. Modified quantitative approach for assessing peripheral blood TREC and KREC levels in immunodeficient patients. RUSSIAN JOURNAL OF INFECTION AND IMMUNITY 2022. [DOI: 10.15789/2220-7619-mmf-2039] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/25/2022]
Abstract
Introduction. The immune status is a multifaceted parameter quantitatively and qualitatively analyzing functional activity immune system state in immune organs as well as some non-specific mechanisms of antimicrobial protection. Peripheral blood level of T-receptor excision rings (TREC) and B-cell excision rings (KREC), respectively, can serve as surrogate markers of T- and B-cell maturation. Currently, the diagnostic kits available on the market have two significant disadvantages: i) the kits are aimed at diagnosing immunodeficiency conditions only in newborns and children, while keeping adult patients uncovered; ii) essentially, use solely single reference normalization gene for data normalization resulting in increased variability and decreased sensitivity of the assay data. The aim: to develop a highly sensitive method for laboratory assessment of the state of immunity in immunodeficient patients by using real-time PCR for assessing TREC and KREC level in children and adults. Materials and methods. There were used whole blood and dry blood spot samples obtained from newborns and adults, apparently healthy individuals as well as patients with verified PID and HIV-infection. A total of 2577 samples were examined. Commercial kits were used as comparison methods. Results. Multiplex PCR was carried out, analyzing the number of target molecules TREC and KREC, as well as fragments of the HPRT and RPP30 normalization genes analyzed with the developed series of plasmid calibrators. The established analytical range of TREC/KREC DNA measurements comprised 103 to 109 copies/mL. The accuracy of measurements on a tablet-type instrument (CFX) was 95.84%, on a rotary-type instrument (Rotor-Gene 3000) 95.11%, which corresponds to the standard indicator. The equivalence between the data obtained after assessing whole blood samples and dry blood drops was shown. The data analysis allowed to find out 100%-diagnostic specificity and sensitivity of the method proposed. Conclusion. The method developed by us allows to diagnose decline in T- and/or B-cell immunity in children and adults and can be used to detect TREC and KREC molecules both in peripheral whole blood samples and dry blood spots using Guthrie cards. Moreover, the uniform values of reference norms can be used regardless of the type of analyzed clinical material. The study data evidence about potential for effective use of multiplex PCR diagnostics both for complex primary testing/screening of newborns and assessing state of immunity to identify adult patients with PID and as a part of the diagnostic monitoring of patients with secondary immunodeficiencies, e.g., HIV infection.
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Capan A, Bostan MS, Mozioglu E, Akoz M, Goren AC, Eroglu MS, Ozturk T. Sequence specific recognition of ssDNA by fluorophore 3-hydroxyflavone. JOURNAL OF PHOTOCHEMISTRY AND PHOTOBIOLOGY B-BIOLOGY 2015; 153:391-6. [PMID: 26555642 DOI: 10.1016/j.jphotobiol.2015.10.019] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/29/2015] [Revised: 10/01/2015] [Accepted: 10/23/2015] [Indexed: 01/30/2023]
Abstract
A fully water soluble 3-hydroxyflavone (3HF) derivative, N-(3-hydroxy-4'-flavonyl)-N,N,N-trimethylammonium sulfate (3HFNMe3) was synthesized. Investigation of its emissions at varying wavelengths revealed that it had three emission bands of normal (N(⁎)), anionic (A(⁎)) and tautomeric (T(⁎)), in ultrapure water. Recognition of single-stranded ten ssDNA chains, having different nucleotide sequences was studied, using the ratiometric change of the intensities of the two bands (A(⁎)/T(⁎)), depending upon the varying environment of the 3HFNMe3 with different ssDNA chains. Addition of the ssDNA chains to the 3HFNMe3 solution caused gradual quenching of the A(⁎) band and had almost no effect on the T(⁎) band. As the ratios of the two bands (A(⁎)/T(⁎)) vs increasing amount of the ssDNAs generated characteristic curves for each ssDNA chain, it became possible to identify the chains with their characteristic curves.
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Affiliation(s)
- Asli Capan
- Department of Chemistry, Faculty of Science, Istanbul Technical University, Maslak, Istanbul 34469, Turkey
| | - Muge S Bostan
- Marmara University, Department of Chemical Engineering, 34722 Kadikoy, Istanbul, Turkey
| | - Erkan Mozioglu
- TUBITAK UME, Chemistry Group Laboratories, PO Box 54, 41470 Gebze-Kocaeli, Turkey
| | - Muslum Akoz
- TUBITAK UME, Chemistry Group Laboratories, PO Box 54, 41470 Gebze-Kocaeli, Turkey
| | - Ahmet C Goren
- TUBITAK UME, Chemistry Group Laboratories, PO Box 54, 41470 Gebze-Kocaeli, Turkey
| | - Mehmet S Eroglu
- Marmara University, Department of Chemical Engineering, 34722 Kadikoy, Istanbul, Turkey; TUBITAK UME, Chemistry Group Laboratories, PO Box 54, 41470 Gebze-Kocaeli, Turkey
| | - Turan Ozturk
- Department of Chemistry, Faculty of Science, Istanbul Technical University, Maslak, Istanbul 34469, Turkey; TUBITAK UME, Chemistry Group Laboratories, PO Box 54, 41470 Gebze-Kocaeli, Turkey
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Goryashchenko AS, Khrenova MG, Bochkova AA, Ivashina TV, Vinokurov LM, Savitsky AP. Genetically Encoded FRET-Sensor Based on Terbium Chelate and Red Fluorescent Protein for Detection of Caspase-3 Activity. Int J Mol Sci 2015; 16:16642-54. [PMID: 26204836 PMCID: PMC4519970 DOI: 10.3390/ijms160716642] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/30/2015] [Revised: 06/30/2015] [Accepted: 07/06/2015] [Indexed: 12/01/2022] Open
Abstract
This article describes the genetically encoded caspase-3 FRET-sensor based on the terbium-binding peptide, cleavable linker with caspase-3 recognition site, and red fluorescent protein TagRFP. The engineered construction performs two induction-resonance energy transfer processes: from tryptophan of the terbium-binding peptide to Tb(3+) and from sensitized Tb(3+) to acceptor--the chromophore of TagRFP. Long-lived terbium-sensitized emission (microseconds), pulse excitation source, and time-resolved detection were utilized to eliminate directly excited TagRFP fluorescence and background cellular autofluorescence, which lasts a fraction of nanosecond, and thus to improve sensitivity of analyses. Furthermore the technique facilitates selective detection of fluorescence, induced by uncleaved acceptor emission. For the first time it was shown that fluorescence resonance energy transfer between sensitized terbium and TagRFP in the engineered construction can be studied via detection of microsecond TagRFP fluorescence intensities. The lifetime and distance distribution between donor and acceptor were calculated using molecular dynamics simulation. Using this data, quantum yield of terbium ions with binding peptide was estimated.
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Affiliation(s)
| | - Maria G Khrenova
- M. V. Lomonosov Moscow State University, Department of Chemistry, 119991 Moscow, Russia.
| | - Anna A Bochkova
- M. V. Lomonosov Moscow State University, Department of Chemistry, 119991 Moscow, Russia.
| | - Tatiana V Ivashina
- Skryabin Institute of Biochemistry and Physiology of Microorganisms, Russian Academy of Sciences, 142290 Pushchino, Russia.
| | - Leonid M Vinokurov
- Branch of Shemyakin and Ovchinnikov Institute of Bioorganic Chemistry, Russian Academy of Sciences, 142290 Pushchino, Russia.
| | - Alexander P Savitsky
- A. N. Bach Institute of Biochemistry, Russian Academy of Sciences, 119071 Moscow, Russia.
- M. V. Lomonosov Moscow State University, Department of Chemistry, 119991 Moscow, Russia.
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Vuojola J, Soukka T. Luminescent lanthanide reporters: new concepts for use in bioanalytical applications. Methods Appl Fluoresc 2014; 2:012001. [DOI: 10.1088/2050-6120/2/1/012001] [Citation(s) in RCA: 55] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/12/2023]
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Zherdeva VV, Savitsky AP. Using lanthanide-based resonance energy transfer for in vitro and in vivo studies of biological processes. BIOCHEMISTRY (MOSCOW) 2013; 77:1553-74. [DOI: 10.1134/s0006297912130111] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/18/2022]
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Su X, Xiao X, Zhang C, Zhao M. Nucleic acid fluorescent probes for biological sensing. APPLIED SPECTROSCOPY 2012; 66:1249-1262. [PMID: 23146180 DOI: 10.1366/12-06803] [Citation(s) in RCA: 54] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/01/2023]
Abstract
Nucleic acid fluorescent probes are playing increasingly important roles in biological sensing in recent years. In addition to the conventional functions of single-stranded DNA/RNA to hybridize with their complementary strands, affinity nucleic acids (aptamers) with specific target binding properties have also been developed, which has greatly broadened the application of nucleic acid fluorescent probes to the detection of a large variety of analytes, including small molecules, proteins, ions, and even whole cells. Another chemical property of nucleic acids is to act as substrates for various nucleic acid enzymes. This property can be utilized not only to detect those enzymes and screen their inhibitors, but also employed to develop effective signal amplification systems, which implies extensive applications. This review mainly covers the biosensing methods based on the above three types of nucleic acid fluorescent probes. The most widely used intensity-based biosensing assays are covered first, including nucleic acid probe-based signal amplification methods. Then fluorescence lifetime, fluorescence anisotropy, and fluorescence correlation spectroscopy assays are introduced, respectively. As a rapidly developing field, fluorescence imaging approaches are also briefly summarized.
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Affiliation(s)
- Xin Su
- Beijing National Laboratory for Molecular Sciences, College of Chemistry and Molecular Engineering, Peking University, China
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Horton RA, Vogel KW. Multiplexing Terbium- and Europium-Based TR-FRET Readouts to Increase Kinase Assay Capacity. ACTA ACUST UNITED AC 2010; 15:1008-15. [DOI: 10.1177/1087057110368993] [Citation(s) in RCA: 12] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/17/2022]
Abstract
Identification and characterization of kinase inhibitor potency and selectivity is often an iterative process in which a library of compounds is first screened against a single kinase, and hits from that screen are then profiled against other kinases to determine specificity. By developing kinase assays that employ either a terbium- or a europium-based time-resolved fluorescence resonance energy transfer (TR-FRET) readout, one can take advantage of the distinct emission properties of these labels to develop assays for 2 kinases that can be performed simultaneously in the same well. This not only increases the information content provided per assay well but can immediately provide information on compound specificity. The authors have applied this strategy to the development of multiplexed assays for 2 examples systems: EGFR and IKKβ, as well as lipid kinase family members mTOR and PIK3C3. They demonstrate the ability of these multiplexed assays to characterize selective kinase inhibitors in a dose-response mode, with no difference in results obtained from traditional single kinase assays performed separately.
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Advances in molecular detection of Aspergillus: an update. Arch Microbiol 2010; 192:409-25. [DOI: 10.1007/s00203-010-0563-y] [Citation(s) in RCA: 24] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/20/2009] [Revised: 11/01/2009] [Accepted: 03/10/2010] [Indexed: 10/19/2022]
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Abstract
In the last decade optical manipulation has evolved from a field of interest for physicists to a versatile tool widely used within life sciences. This has been made possible in particular due to the development of a large variety of imaging techniques that allow detailed information to be gained from investigations of single cells. The use of multiple optical traps has high potential within single-cell analysis since parallel measurements provide good statistics. Multifunctional optical tweezers are, for instance, used to study cell heterogeneity in an ensemble, and force measurements are used to investigate the mechanical properties of individual cells. Investigations of molecular motors and forces on the single-molecule level have led to discoveries that would have been difficult to make with other techniques. Optical manipulation has prospects within the field of cell signalling and tissue engineering. When combined with microfluidic systems the chemical environment of cells can be precisely controlled. Hence the influence of pH, salt concentration, drugs and temperature can be investigated in real time. Fast advancing technical developments of automated and user-friendly optical manipulation tools and cross-disciplinary collaboration will contribute to the routinely use of optical manipulation techniques within the life sciences.
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Affiliation(s)
- Kerstin Ramser
- Department of Computer Science and Electrical Engineering, Luleå University of Technology, Luleå, Sweden
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Affiliation(s)
- Jean-Claude G. Bünzli
- Laboratory of Lanthanide Supramolecular Chemistry, École Polytechnique Fédérale de Lausanne (EPFL), BCH 1402, CH-1015 Lausanne, Switzerland, and Department of Advanced Materials Chemistry, WCU Center for Next Generation Photovoltaic Systems, Korea University, Sejong Campus, 208 Seochang, Jochiwon, Chung Nam 339-700, Republic of Korea
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Cai S, Xin L, Lau C, Lu J. Highly sensitive non-stripping gold nanoparticles-based chemiluminescent detection of DNA hybridization coupled to magnetic beads. Analyst 2010; 135:615-20. [DOI: 10.1039/b927359j] [Citation(s) in RCA: 18] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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Eliseeva SV, Bünzli JCG. Lanthanide luminescence for functional materials and bio-sciences. Chem Soc Rev 2010; 39:189-227. [PMID: 20023849 DOI: 10.1039/b905604c] [Citation(s) in RCA: 2121] [Impact Index Per Article: 151.5] [Reference Citation Analysis] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
Affiliation(s)
- Svetlana V Eliseeva
- Laboratory of Lanthanide Supramolecular Chemistry, Swiss Federal Institute of Technology, Lausanne (EPFL)
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Chauvin AS, Comby S, Baud M, De Piano C, Duhot C, Bünzli JCG. Luminescent Lanthanide Helicates Self-Assembled from Ditopic Ligands Bearing Phosphonic Acid or Phosphoester Units. Inorg Chem 2009; 48:10687-96. [DOI: 10.1021/ic901424w] [Citation(s) in RCA: 29] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Anne-Sophie Chauvin
- Laboratory of Lanthanide Supramolecular Chemistry, École Polytechnique Fédérale de Lausanne, BCH 1405, CH-1015 Lausanne, Switzerland
| | - Steve Comby
- Laboratory of Lanthanide Supramolecular Chemistry, École Polytechnique Fédérale de Lausanne, BCH 1405, CH-1015 Lausanne, Switzerland
| | - Matthias Baud
- Laboratory of Lanthanide Supramolecular Chemistry, École Polytechnique Fédérale de Lausanne, BCH 1405, CH-1015 Lausanne, Switzerland
| | - Cyntia De Piano
- Laboratory of Lanthanide Supramolecular Chemistry, École Polytechnique Fédérale de Lausanne, BCH 1405, CH-1015 Lausanne, Switzerland
| | - Céline Duhot
- Laboratory of Lanthanide Supramolecular Chemistry, École Polytechnique Fédérale de Lausanne, BCH 1405, CH-1015 Lausanne, Switzerland
| | - Jean-Claude G. Bünzli
- Laboratory of Lanthanide Supramolecular Chemistry, École Polytechnique Fédérale de Lausanne, BCH 1405, CH-1015 Lausanne, Switzerland
- Department of Advanced Materials Chemistry, Korea University, 208 Seochong, Jochiwon, ChungNam 339-700, Republic of Korea
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Ollikka P, Raussi HM, Laitala V, Jaakkola L, Hovinen J, Hemmilä I, Ylikoski A. Genotyping of celiac disease-related-risk haplotypes using a closed-tube polymerase chain reaction analysis of dried blood and saliva disk samples. Anal Biochem 2009; 386:20-9. [DOI: 10.1016/j.ab.2008.11.047] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/02/2008] [Revised: 11/30/2008] [Accepted: 11/30/2008] [Indexed: 10/21/2022]
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Deiters E, Song B, Chauvin AS, Vandevyver CDB, Gumy F, Bünzli JCG. Luminescent bimetallic lanthanide bioprobes for cellular imaging with excitation in the visible-light range. Chemistry 2009; 15:885-900. [PMID: 19065695 DOI: 10.1002/chem.200801868] [Citation(s) in RCA: 144] [Impact Index Per Article: 9.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/08/2022]
Abstract
A series of homoditopic ligands H(2)L(CX) (X=4-6) has been designed to self-assemble with lanthanide ions (Ln(III)), resulting in neutral bimetallic helicates of overall composition [Ln(2)(L(CX))(3)] with the aim of testing the influence of substituents on the photophysical properties, particularly the excitation wavelength. The complex species are thermodynamically stable in water (log beta(23) in the range 26-28 at pH 7.4) and display a metal-ion environment with pseudo-D(3) symmetry and devoid of coordinated water molecules. The emission of Eu(III), Tb(III), and Yb(III) is sensitised to various extents, depending on the properties of the ligand donor levels. The best helicate is [Eu(2)(L(C5))(3)] with excitation maxima at 350 and 365 nm and a quantum yield of 9 %. The viability of cervix cancer HeLa cells is unaffected when incubated with up to 500 mum of the chelate during 24 h. The helicate permeates into the cells by endocytosis and locates into lysosomes, which co-localise with the endoplasmatic reticulum, as demonstrated by counterstaining experiments. The relatively long excitation wavelength allows easy recording of bright luminescent images on a confocal microscope (lambda(exc)=405 nm). The new lanthanide bioprobe remains undissociated in the cell medium, and is amenable to facile derivatisation. Examination of data for seven Eu(III) and Tb(III) bimetallic helicates point to shortcomings in the phenomenological rules of thumb between the energy gap DeltaE((3)pipi*-(5)D(J)) and the sensitisation efficiency of the ligands.
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Affiliation(s)
- Emmanuel Deiters
- Laboratory of Lanthanide Supramolecular Chemistry, Ecole Polytechnique Fédérale de Lausanne (EPFL), Switzerland
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Zhang J, Qi H, Li Y, Yang J, Gao Q, Zhang C. Electrogenerated Chemiluminescence DNA Biosensor Based on Hairpin DNA Probe Labeled with Ruthenium Complex. Anal Chem 2008; 80:2888-94. [DOI: 10.1021/ac701995g] [Citation(s) in RCA: 172] [Impact Index Per Article: 10.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/17/2022]
Affiliation(s)
- Jing Zhang
- Key Laboratory of Applied Surface and Colloid Chemistry, Ministry of Education, School of Chemistry and Materials Science, Shaanxi Normal University, Xi'an 710062, China
| | - Honglan Qi
- Key Laboratory of Applied Surface and Colloid Chemistry, Ministry of Education, School of Chemistry and Materials Science, Shaanxi Normal University, Xi'an 710062, China
| | - Yan Li
- Key Laboratory of Applied Surface and Colloid Chemistry, Ministry of Education, School of Chemistry and Materials Science, Shaanxi Normal University, Xi'an 710062, China
| | - Jia Yang
- Key Laboratory of Applied Surface and Colloid Chemistry, Ministry of Education, School of Chemistry and Materials Science, Shaanxi Normal University, Xi'an 710062, China
| | - Qiang Gao
- Key Laboratory of Applied Surface and Colloid Chemistry, Ministry of Education, School of Chemistry and Materials Science, Shaanxi Normal University, Xi'an 710062, China
| | - Chengxiao Zhang
- Key Laboratory of Applied Surface and Colloid Chemistry, Ministry of Education, School of Chemistry and Materials Science, Shaanxi Normal University, Xi'an 710062, China
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Song B, Vandevyver CDB, Deiters E, Chauvin AS, Hemmilä I, Bünzli JCG. A versatile method for quantification of DNA and PCR products based on time-resolved Euiii luminescence. Analyst 2008; 133:1749-56. [DOI: 10.1039/b807959e] [Citation(s) in RCA: 30] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/01/2023]
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Affiliation(s)
- Audrey Sassolas
- Laboratoire de Génie Enzymatique et Biomoléculaire, Institut de Chimie et Biochimie Moléculaires et Supramoléculaires, 43 Boulevard du 11 Novembre 1918, Villeurbanne F-69622, France, UMR5246, Centre National de La Recherche Scientifque, Villeurbanne F-69622, France, Université de Lyon, Lyon F-69622, France, Université Lyon 1, Lyon F-69622, France, Institut National des Sciences Appliquées de Lyon, École d'Ingénieurs, Villeurbanne F-69621, France, and École Supérieure Chimie Physique Électronique de Lyon,
| | - Béatrice D. Leca-Bouvier
- Laboratoire de Génie Enzymatique et Biomoléculaire, Institut de Chimie et Biochimie Moléculaires et Supramoléculaires, 43 Boulevard du 11 Novembre 1918, Villeurbanne F-69622, France, UMR5246, Centre National de La Recherche Scientifque, Villeurbanne F-69622, France, Université de Lyon, Lyon F-69622, France, Université Lyon 1, Lyon F-69622, France, Institut National des Sciences Appliquées de Lyon, École d'Ingénieurs, Villeurbanne F-69621, France, and École Supérieure Chimie Physique Électronique de Lyon,
| | - Loïc J. Blum
- Laboratoire de Génie Enzymatique et Biomoléculaire, Institut de Chimie et Biochimie Moléculaires et Supramoléculaires, 43 Boulevard du 11 Novembre 1918, Villeurbanne F-69622, France, UMR5246, Centre National de La Recherche Scientifque, Villeurbanne F-69622, France, Université de Lyon, Lyon F-69622, France, Université Lyon 1, Lyon F-69622, France, Institut National des Sciences Appliquées de Lyon, École d'Ingénieurs, Villeurbanne F-69621, France, and École Supérieure Chimie Physique Électronique de Lyon,
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Inter- and intra-molecular energy transfer during sensitization of Eu(DBM)3Phen luminescence by Tb(DBM)3Phen in PMMA. J Photochem Photobiol A Chem 2007. [DOI: 10.1016/j.jphotochem.2007.04.008] [Citation(s) in RCA: 40] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/15/2022]
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