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A tetrameric DNA structure with protonated cytosine·cytosine base pairs
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[Comment appears in Nature 1993, 363:499-500.]
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Structures of guanine-rich and cytosine-rich quadruplexes formed in vitro by telomeric, centromeric, and triplet repeat disease DNA sequences
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Patel, D.J.1
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0033150944
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Multistranded DNA structures
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A recent review on triplexes and quadruplexes, including cation interactions
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Gilbert D.E., Feigon J. Multistranded DNA structures. Curr Opin Struct Biol. 9:1999;305-314. A recent review on triplexes and quadruplexes, including cation interactions.
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Gilbert, D.E.1
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Stability of chimeric DNA/RNA cytosine tetrads: Implications for i-motif formation by RNA
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Stable loop in the crystal structure of the intercalated four-stranded cytosine-rich metazoan telomere
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0032531972
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Intercalated cytosine motif and novel adenine clusters in the crystal structure of the Tetrahymena telomere
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The cytosine-rich repeat of the Tetrahymena telomere, AACCCC, associates into an i-motif. The crystal contains two unequivalent tetramers with different intercalation topologies (5′E and 3′E). The tetramers associate via previously unknown clusters of eight adenines
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Cai L., Chen L., Raghavan S., Ratliff R., Moyzis R., Rich A. Intercalated cytosine motif and novel adenine clusters in the crystal structure of the Tetrahymena telomere. Nucleic Acids Res. 26:1998;4696-4705. The cytosine-rich repeat of the Tetrahymena telomere, AACCCC, associates into an i-motif. The crystal contains two unequivalent tetramers with different intercalation topologies (5′E and 3′E). The tetramers associate via previously unknown clusters of eight adenines.
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Nucleic Acids Res
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Cai, L.1
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Energetics of the lattice: Packing elements in crystals of four-stranded intercalated cytosine-rich DNA molecules
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Berger I., Cai L., Chen L., Rich A. Energetics of the lattice: packing elements in crystals of four-stranded intercalated cytosine-rich DNA molecules. Biopolymers. 44:1998;257-267.
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Berger, I.1
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0033081193
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Stabilization of the i-motif by intramolecular adenine-adenine-thymine base triple in the structure of d(ACCCT)
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Weil J., Min T., Yang C., Wang S., Sutherland C., Sinha N., Kang C. Stabilization of the i-motif by intramolecular adenine-adenine-thymine base triple in the structure of d(ACCCT). Acta Crystallogr D Biol Crystallogr. 55:1999;422-429.
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0032529837
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1H nuclear magnetic resonance study on equilibrium between two four-stranded solution conformations of short d(CnT)
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Kanaori K., Maeda A., Kanehara H., Tajima K., Makino K. 1H nuclear magnetic resonance study on equilibrium between two four-stranded solution conformations of short d(CnT). Biochemistry. 37:1998;12979-12986.
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Kanaori, K.1
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11
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0029643792
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Solution structures of the i-motif tetramers of d(TCC), d(5methylCCT) and d(T5methylCC): Novel NOE connections between amino protons and sugar protons
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Leroy J.L., Guéron M. Solution structures of the i-motif tetramers of d(TCC), d(5methylCCT) and d(T5methylCC): novel NOE connections between amino protons and sugar protons. Structure. 3:1995;101-120.
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Leroy, J.L.1
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0343405468
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Switching and looping in i-motif structures
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R.H. Sarma, & M.H. Sarma. Schenectady, NY: Adenine Press
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Leroy J.L., Nonin S., Han X., Phan A.T., Guéron M. Switching and looping in i-motif structures. Sarma R.H., Sarma M.H. Structure, Motions, Interactions and Expression in Biological Macromolecules, Proceedings of the 10th Conversation in the Discipline of Biomolecular Stereodynamics; 1997, vol 1. 1998;49-62 Adenine Press, Schenectady, NY.
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Structure, Motions, Interactions and Expression in Biological Macromolecules, Proceedings of the 10th Conversation in the Discipline of Biomolecular Stereodynamics; 1997, Vol 1
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Leroy, J.L.1
Nonin, S.2
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Guéron, M.5
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13
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0031572186
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Solution structure and base-pair opening kinetics of the i-motif dimer of d(5mCCTTTACC): A noncanonical structure with possible roles in chromosome stability
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Nonin S., Phan A.T., Leroy J.L. Solution structure and base-pair opening kinetics of the i-motif dimer of d(5mCCTTTACC): a noncanonical structure with possible roles in chromosome stability. Structure. 5:1997;1231-1246.
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Nonin, S.1
Phan, A.T.2
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14
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0343405467
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Intramolecular i-motif structures of telomeric DNA
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This NMR study examines a large number of sequences that form an intramolecular i-motif structure. The effects of linker sequence and cytosine stretch length on the intercalation and folding topologies are discussed
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Phan A.T., Leroy J-L. Intramolecular i-motif structures of telomeric DNA. J Biomol Struct Dyn. 17:2000;377-383. This NMR study examines a large number of sequences that form an intramolecular i-motif structure. The effects of linker sequence and cytosine stretch length on the intercalation and folding topologies are discussed.
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J Biomol Struct Dyn
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Phan, A.T.1
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Structure-function relationship of the insulin-linked polymorphic region: Implications in length polymorphism and gene regulation
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R.H. Sarma, & M.H. Sarma. Schenectady, NY: Adenine Press
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th Conversation in the Discipline of Biomolecular Stereodynamics; 1997, vol 2. 1998;237-248 Adenine Press, Schenectady, NY.
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Catasti, P.1
Chen, X.2
Bradbury, E.M.3
Gupta, G.4
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16
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0031587299
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Cytosine-rich strands of the insulin minisatellite adopt hairpins with intercalated cytosine+.cytosine pairs
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Catasti P., Chen X., Deaven L.L., Moyzis R.K., Bradbury E.M., Gupta G. Cytosine-rich strands of the insulin minisatellite adopt hairpins with intercalated cytosine+.cytosine pairs. J Mol Biol. 272:1997;369-382.
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Catasti, P.1
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Gupta, G.6
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17
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0031558792
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Centromeric pyrimidine strands fold into an intercalated motif by forming a double hairpin with a novel T:G:G:T tetrad: Solution structure of the d(TCCCGTTTCCA) dimer
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Gallego J., Chou S.H., Reid B.R. Centromeric pyrimidine strands fold into an intercalated motif by forming a double hairpin with a novel T:G:G:T tetrad: solution structure of the d(TCCCGTTTCCA) dimer. J Mol Biol. 273:1997;840-856.
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0032557634
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An intramolecular i-motif: The solution structure and base-pair opening kinetics of d(5mCCT3CCT3ACCT3CC)
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Han X., Leroy J.L., Guéron M. An intramolecular i-motif: the solution structure and base-pair opening kinetics of d(5mCCT3CCT3ACCT3CC). J Mol Biol. 278:1998;949-965.
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0343841322
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Human centromeric satellite III cytosine-rich repeats (CCATT)n fold into the i-motif in vitro; Solution structure of the d(mCCATTCCAUTCCUTTCC) monomer
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Nonin S., Leroy J.L. Human centromeric satellite III cytosine-rich repeats (CCATT)n fold into the i-motif in vitro; solution structure of the d(mCCATTCCAUTCCUTTCC) monomer. J Biomol Struct Dyn. 16:1999;1354.
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0029082563
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Intramolecular folding of pyrimidine oligo-deoxynucleotides into an i-DNA motif
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Mergny J.L., Lacroix L., Han X., Leroy J.L., Helene C. Intramolecular folding of pyrimidine oligo-deoxynucleotides into an i-DNA motif. J Am Chem Soc. 117:1995;8887-8898.
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21
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0033514429
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Fluorescence energy transfer as a probe for tetraplex formation: The i-motif
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The folding of oligodeoxynucleotides into an intramolecular i-motif was traced at concentrations as low as 50 pM by resonant energy transfer between a donor and an acceptor covalently bound to the 5′ and 3′ ends of the DNA
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Mergny J.L. Fluorescence energy transfer as a probe for tetraplex formation: the i-motif. Biochemistry. 38:1999;1573-1581. The folding of oligodeoxynucleotides into an intramolecular i-motif was traced at concentrations as low as 50 pM by resonant energy transfer between a donor and an acceptor covalently bound to the 5′ and 3′ ends of the DNA.
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Biochemistry
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Mergny, J.L.1
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0034716937
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The solution structure and internal motions of a fragment of the cytidine-rich strand of the human telomere
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2CCCT) folds into an intramolecular i-motif whose high-definition structure and internal motions were determined. The intercalation topology is 5′E. The first and the third TAA linkers loop across the wide grooves and form a dynamic cluster, exchanging structures in milliseconds at 0°C. In one of the two loop configurations, the central adenosine (either A6 or A18) flips around the glycosidic bond
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2CCCT) folds into an intramolecular i-motif whose high-definition structure and internal motions were determined. The intercalation topology is 5′E. The first and the third TAA linkers loop across the wide grooves and form a dynamic cluster, exchanging structures in milliseconds at 0°C. In one of the two loop configurations, the central adenosine (either A6 or A18) flips around the glycosidic bond.
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J Mol Biol
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Phan, A.T.1
Guéron, M.2
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Inability of RNA to form the i-motif: Implications for triplex formation
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0031458177
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D-2-deoxyribose and D-arabinose, but not D-ribose, stabilize the cytosine tetrad (i-DNA) structure
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Robidoux S., Damha M.J. D-2-deoxyribose and D-arabinose, but not D-ribose, stabilize the cytosine tetrad (i-DNA) structure. J Biomol Struct Dyn. 15:1997;529-535.
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0031036571
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Spectroscopic evidence for the formation of four-stranded solution structure of oligo-deoxycytidine phosphorothioate
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Kanehara, H.1
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Makino, K.5
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27
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0032212211
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Kinetics and thermodynamics of i-DNA formation: Phosphodiester versus modified oligo-deoxynucleotides
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The phosphorothioate derivatives formed intramolecular i-motif structures whose stability was comparable to that of the parent compound, but whose kinetics were faster. The i-motif was not formed by the methylphosphonate and PNA derivatives
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Mergny J.L., Lacroix L. Kinetics and thermodynamics of i-DNA formation: phosphodiester versus modified oligo-deoxynucleotides. Nucleic Acids Res. 26:1998;4797-4803. The phosphorothioate derivatives formed intramolecular i-motif structures whose stability was comparable to that of the parent compound, but whose kinetics were faster. The i-motif was not formed by the methylphosphonate and PNA derivatives.
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Mergny, J.L.1
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Oligomers with intercalating cytosine-cytosine+ base pairs and peptide backbone: DNA i-motif analogs
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Diederichsen U. Oligomers with intercalating cytosine-cytosine+ base pairs and peptide backbone: DNA i-motif analogs. Angew Chem Int Ed Engl. 37:1998;2273-2276.
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Inter-strand C-H...O hydrogen bonds stabilizing four-stranded intercalated molecules: Stereoelectronic effects of O4' in cytosine-rich DNA
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The folding of centromeric DNA strands into intercalated structures: A physicochemical and computational study
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4) tetramer, including, for the latter, a comparison with nonintercalated duplexes. The i-motif is stabilized by interactions between hydrogen-bonded cytosines and by nonpolar forces, including hydrophobic interactions and van der Waals contacts
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4) tetramer, including, for the latter, a comparison with nonintercalated duplexes. The i-motif is stabilized by interactions between hydrogen-bonded cytosines and by nonpolar forces, including hydrophobic interactions and van der Waals contacts.
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Molecular dynamics of hemiprotonated intercalated four-stranded i-DNA: Stable trajectories on a nanosecond scale
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ST-1, a 39-kilodalton protein in Trypanosoma brucei, exhibits a dual affinity for the duplex form of the 29-base-pair subtelomeric repeat and its C-rich strand
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Eid J.E., Sollner-Webb B. ST-1, a 39-kilodalton protein in Trypanosoma brucei, exhibits a dual affinity for the duplex form of the 29-base-pair subtelomeric repeat and its C-rich strand. Mol Cell Biol. 15:1995;389-397.
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n
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A protein present in nuclear extracts from several vertebrates binds specifically to the vertebrate telomeric cytosine-rich sequence. The similitude of sequence requirement for binding and for formation of the i-motif suggests that the protein binds to the i-motif structure
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n. Eur J Biochem. 258:1998;93-99. A protein present in nuclear extracts from several vertebrates binds specifically to the vertebrate telomeric cytosine-rich sequence. The similitude of sequence requirement for binding and for formation of the i-motif suggests that the protein binds to the i-motif structure.
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0033169060
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DDP1, a single-stranded nucleic acid-binding protein of Drosophila, associates with pericentric heterochromatin and is functionally homologous to the yeast Scp160p, which is involved in the control of cell ploidy
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Huertas D., Fanti L., Pimpinelli S., Marsellach F.X., Pina B., Azorin F. DDP1, a single-stranded nucleic acid-binding protein of Drosophila, associates with pericentric heterochromatin and is functionally homologous to the yeast Scp160p, which is involved in the control of cell ploidy. EMBO J. 18:1999;3820-3833.
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39
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0343384080
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Identification of two human nuclear proteins that recognise the cytosine-rich strand of human telomeres in vitro
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Lacroix L., Lienard H., Labourier E., Djavaheri-Mergny M., Lacoste J., Leffers H., Tazi J., Helene C., Mergny J.L. Identification of two human nuclear proteins that recognise the cytosine-rich strand of human telomeres in vitro. Nucleic Acids Res. 28:2000;1564-1575.
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Lacroix, L.1
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Djavaheri-Mergny, M.4
Lacoste, J.5
Leffers, H.6
Tazi, J.7
Helene, C.8
Mergny, J.L.9
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