Richard Lavery, Ph.D. - Publications

Affiliations: 
IBCP 
Website:
http://www.ibcp.fr/_Richard-LAVERY_

125 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2017 Reymer A, Zakrzewska K, Lavery R. Sequence-dependent response of DNA to torsional stress: a potential biological regulation mechanism. Nucleic Acids Research. PMID 29267977 DOI: 10.1093/nar/gkx1270  0.68
2017 Pasi M, Zakrzewska K, Maddocks JH, Lavery R. Analyzing DNA curvature and its impact on the ionic environment: application to molecular dynamics simulations of minicircles. Nucleic Acids Research. PMID 28180333 DOI: 10.1093/nar/gkx092  0.68
2015 Frezza E, Lavery R. Internal Normal Mode Analysis (iNMA) Applied to Protein Conformational Flexibility. Journal of Chemical Theory and Computation. 11: 5503-12. PMID 26574338 DOI: 10.1021/acs.jctc.5b00724  1
2015 Pasi M, Maddocks JH, Lavery R. Analyzing ion distributions around DNA: sequence-dependence of potassium ion distributions from microsecond molecular dynamics. Nucleic Acids Research. 43: 2412-23. PMID 25662221 DOI: 10.1093/nar/gkv080  1
2015 Ceres N, Lavery R. Improving the treatment of coarse-grain electrostatics: CVCEL Journal of Chemical Physics. 143. DOI: 10.1063/1.4933434  1
2014 Pasi M, Maddocks JH, Beveridge D, Bishop TC, Case DA, Cheatham T, Dans PD, Jayaram B, Lankas F, Laughton C, Mitchell J, Osman R, Orozco M, Pérez A, Petkevi?i?t? D, ... ... Lavery R, et al. μABC: a systematic microsecond molecular dynamics study of tetranucleotide sequence effects in B-DNA. Nucleic Acids Research. 42: 12272-83. PMID 25260586 DOI: 10.1093/nar/gku855  1
2014 Dans PD, Faustino I, Battistini F, Zakrzewska K, Lavery R, Orozco M. Unraveling the sequence-dependent polymorphic behavior of d(CpG) steps in B-DNA. Nucleic Acids Research. 42: 11304-20. PMID 25223784 DOI: 10.1093/nar/gku809  1
2014 Lavery R, Maddocks JH, Pasi M, Zakrzewska K. Analyzing ion distributions around DNA. Nucleic Acids Research. 42: 8138-49. PMID 24906882 DOI: 10.1093/nar/gku504  1
2013 Meyer S, Jost D, Theodorakopoulos N, Peyrard M, Lavery R, Everaers R. Temperature dependence of the DNA double helix at the nanoscale: structure, elasticity, and fluctuations. Biophysical Journal. 105: 1904-14. PMID 24138866 DOI: 10.1016/j.bpj.2013.09.004  1
2013 Pasi M, Lavery R, Ceres N. PaLaCe: A coarse-grain protein model for studying mechanical properties Journal of Chemical Theory and Computation. 9: 785-793. DOI: 10.1021/ct3007925  1
2012 Dans PD, Pérez A, Faustino I, Lavery R, Orozco M. Exploring polymorphisms in B-DNA helical conformations. Nucleic Acids Research. 40: 10668-78. PMID 23012264 DOI: 10.1093/nar/gks884  1
2012 Wilhelm M, Mukherjee A, Bouvier B, Zakrzewska K, Hynes JT, Lavery R. Multistep drug intercalation: molecular dynamics and free energy studies of the binding of daunomycin to DNA. Journal of the American Chemical Society. 134: 8588-96. PMID 22548344 DOI: 10.1021/ja301649k  1
2012 Zakrzewska K, Lavery R. Towards a molecular view of transcriptional control. Current Opinion in Structural Biology. 22: 160-7. PMID 22296921 DOI: 10.1016/j.sbi.2012.01.004  1
2012 Ceres N, Pasi M, Lavery R. A protein solvation model based on residue burial Journal of Chemical Theory and Computation. 8: 2141-2144. DOI: 10.1021/ct3001552  1
2012 Ceres N, Lavery R. Coarse-grain protein models Rsc Biomolecular Sciences. 1: 219-248.  1
2011 Bouvier B, Zakrzewska K, Lavery R. Protein-DNA recognition triggered by a DNA conformational switch. Angewandte Chemie (International Ed. in English). 50: 6516-8. PMID 21626631 DOI: 10.1002/anie.201101417  1
2011 Blanchet C, Pasi M, Zakrzewska K, Lavery R. CURVES+ web server for analyzing and visualizing the helical, backbone and groove parameters of nucleic acid structures. Nucleic Acids Research. 39: W68-73. PMID 21558323 DOI: 10.1093/nar/gkr316  1
2010 Lavery R, Zakrzewska K, Beveridge D, Bishop TC, Case DA, Cheatham T, Dixit S, Jayaram B, Lankas F, Laughton C, Maddocks JH, Michon A, Osman R, Orozco M, Perez A, et al. A systematic molecular dynamics study of nearest-neighbor effects on base pair and base pair step conformations and fluctuations in B-DNA. Nucleic Acids Research. 38: 299-313. PMID 19850719 DOI: 10.1093/nar/gkp834  1
2009 Zakrzewska K, Bouvier B, Michon A, Blanchet C, Lavery R. Protein-DNA binding specificity: a grid-enabled computational approach applied to single and multiple protein assemblies. Physical Chemistry Chemical Physics : Pccp. 11: 10712-21. PMID 20145815 DOI: 10.1039/b910888m  1
2009 Lavery R, Moakher M, Maddocks JH, Petkeviciute D, Zakrzewska K. Conformational analysis of nucleic acids revisited: Curves+. Nucleic Acids Research. 37: 5917-29. PMID 19625494 DOI: 10.1093/nar/gkp608  1
2009 Bouvier B, Lavery R. A free energy pathway for the interaction of the SRY protein with its binding site on DNA from atomistic simulations. Journal of the American Chemical Society. 131: 9864-5. PMID 19580270 DOI: 10.1021/ja901761a  1
2009 Prévost C, Takahashi M, Lavery R. Deforming DNA: from physics to biology. Chemphyschem : a European Journal of Chemical Physics and Physical Chemistry. 10: 1399-404. PMID 19492398 DOI: 10.1002/cphc.200900253  1
2009 Durrieu MP, Bond PJ, Sansom MS, Lavery R, Baaden M. Coarse-grain simulations of the R-SNARE fusion protein in its membrane environment detect long-lived conformational sub-states. Chemphyschem : a European Journal of Chemical Physics and Physical Chemistry. 10: 1548-52. PMID 19479895 DOI: 10.1002/cphc.200900216  1
2009 Curuksu J, Zacharias M, Lavery R, Zakrzewska K. Local and global effects of strong DNA bending induced during molecular dynamics simulations. Nucleic Acids Research. 37: 3766-73. PMID 19380377 DOI: 10.1093/nar/gkp234  1
2009 Engelen S, Trojan LA, Sacquin-Mora S, Lavery R, Carbone A. Joint evolutionary trees: a large-scale method to predict protein interfaces based on sequence sampling. Plos Computational Biology. 5: e1000267. PMID 19165315 DOI: 10.1371/journal.pcbi.1000267  1
2009 Sacquin-Mora S, Lavery R. Modeling the mechanical response of proteins to anisotropic deformation. Chemphyschem : a European Journal of Chemical Physics and Physical Chemistry. 10: 115-8. PMID 19006155 DOI: 10.1002/cphc.200800480  1
2008 Sacquin-Mora S, Carbone A, Lavery R. Identification of protein interaction partners and protein-protein interaction sites. Journal of Molecular Biology. 382: 1276-89. PMID 18708070 DOI: 10.1016/j.jmb.2008.08.002  1
2008 Mukherjee A, Lavery R, Bagchi B, Hynes JT. On the molecular mechanism of drug intercalation into DNA: a simulation study of the intercalation pathway, free energy, and DNA structural changes. Journal of the American Chemical Society. 130: 9747-55. PMID 18611009 DOI: 10.1021/ja8001666  1
2008 Durrieu MP, Lavery R, Baaden M. Interactions between neuronal fusion proteins explored by molecular dynamics. Biophysical Journal. 94: 3436-46. PMID 18212009 DOI: 10.1529/biophysj.107.123117  1
2008 Deremble C, Lavery R, Zakrzewska K. Protein-DNA recognition: Breaking the combinatorial barrier Computer Physics Communications. 179: 112-119. DOI: 10.1016/j.cpc.2008.01.033  1
2008 Krieger E, Leger L, Durrieu MP, Taib N, Bond P, Laguerre M, Lavery R, Sansom MSP, Baaden M. Atomistic modeling of the membrane-embedded synaptic fusion complex: A grand challenge project on the DEISA HPC infrastructure Advances in Parallel Computing. 15: 729-736.  1
2007 Sacquin-Mora S, Sebban P, Derrien V, Frick B, Lavery R, Alba-Simionesco C. Probing the flexibility of the bacterial reaction center: the wild-type protein is more rigid than two site-specific mutants. Biochemistry. 46: 14960-8. PMID 18052234 DOI: 10.1021/bi7004416  1
2007 Lavery R, Sacquin-Mora S. Protein mechanics: a route from structure to function. Journal of Biosciences. 32: 891-8. PMID 17914231  1
2007 Sacquin-Mora S, Laforet E, Lavery R. Locating the active sites of enzymes using mechanical properties. Proteins. 67: 350-9. PMID 17311346 DOI: 10.1002/prot.21353  1
2007 Lavery R, Sharp KA. Theory and simulation Current Opinion in Structural Biology. 17: 147-148. DOI: 10.1016/j.sbi.2007.03.007  1
2006 Lankas F, Lavery R, Maddocks JH. Kinking occurs during molecular dynamics simulations of small DNA minicircles. Structure (London, England : 1993). 14: 1527-34. PMID 17027501 DOI: 10.1016/j.str.2006.08.004  1
2006 Cailliez F, Lavery R. Dynamics and stability of E-cadherin dimers. Biophysical Journal. 91: 3964-71. PMID 16980367 DOI: 10.1529/biophysj.106.087213  1
2006 Lionnet T, Joubaud S, Lavery R, Bensimon D, Croquette V. Wringing out DNA. Physical Review Letters. 96: 178102. PMID 16712339 DOI: 10.1103/PhysRevLett.96.178102  1
2006 Yun MR, Lavery R, Mousseau N, Zakrzewska K, Derreumaux P. ARTIST: an activated method in internal coordinate space for sampling protein energy landscapes. Proteins. 63: 967-75. PMID 16523485 DOI: 10.1002/prot.20938  1
2006 Sacquin-Mora S, Lavery R. Investigating the local flexibility of functional residues in hemoproteins. Biophysical Journal. 90: 2706-17. PMID 16428284 DOI: 10.1529/biophysj.105.074997  1
2006 Várnai P, Lavery R. Modeling DNA deformation Computational Studies of Rna and Dna. 169-210. DOI: 10.1007/978-1-4020-4851-3_7  1
2005 Emanuele E, Zakrzewska K, Markovitsi D, Lavery R, Millié P. Exciton states of dynamic DNA double helices: alternating dCdG sequences. The Journal of Physical Chemistry. B. 109: 16109-18. PMID 16853047 DOI: 10.1021/jp051833k  1
2005 Lavery R. Recognizing DNA. Quarterly Reviews of Biophysics. 38: 339-44. PMID 16515738 DOI: 10.1017/S0033583505004105  1
2005 Cailliez F, Lavery R. Cadherin mechanics and complexation: the importance of calcium binding. Biophysical Journal. 89: 3895-903. PMID 16183887 DOI: 10.1529/biophysj.105.067322  1
2005 Dixit SB, Beveridge DL, Case DA, Cheatham TE, Giudice E, Lankas F, Lavery R, Maddocks JH, Osman R, Sklenar H, Thayer KM, Varnai P. Molecular dynamics simulations of the 136 unique tetranucleotide sequences of DNA oligonucleotides. II: sequence context effects on the dynamical structures of the 10 unique dinucleotide steps. Biophysical Journal. 89: 3721-40. PMID 16169978 DOI: 10.1529/biophysj.105.067397  1
2005 Deremble C, Lavery R. Macromolecular recognition. Current Opinion in Structural Biology. 15: 171-5. PMID 15837175 DOI: 10.1016/j.sbi.2005.01.018  1
2005 O'Flanagan RA, Paillard G, Lavery R, Sengupta AM. Non-additivity in protein-DNA binding. Bioinformatics (Oxford, England). 21: 2254-63. PMID 15746285 DOI: 10.1093/bioinformatics/bti361  1
2005 Lavery R. Course 1 DNA structure, dynamics and recognition Les Houches Summer School Proceedings. 82: 1-40. DOI: 10.1016/S0924-8099(05)80028-9  1
2004 Paillard G, Deremble C, Lavery R. Looking into DNA recognition: zinc finger binding specificity. Nucleic Acids Research. 32: 6673-82. PMID 15613596 DOI: 10.1093/nar/gkh1003  1
2004 Navizet I, Cailliez F, Lavery R. Probing protein mechanics: residue-level properties and their use in defining domains. Biophysical Journal. 87: 1426-35. PMID 15345525 DOI: 10.1529/biophysj.104.042085  1
2004 Beveridge DL, Barreiro G, Byun KS, Case DA, Cheatham TE, Dixit SB, Giudice E, Lankas F, Lavery R, Maddocks JH, Osman R, Seibert E, Sklenar H, Stoll G, Thayer KM, et al. Molecular dynamics simulations of the 136 unique tetranucleotide sequences of DNA oligonucleotides. I. Research design and results on d(CpG) steps. Biophysical Journal. 87: 3799-813. PMID 15326025 DOI: 10.1529/biophysj.104.045252  1
2004 Navizet I, Lavery R, Jernigan RL. Myosin flexibility: structural domains and collective vibrations. Proteins. 54: 384-93. PMID 14747987 DOI: 10.1002/prot.10476  1
2004 Paillard G, Lavery R. Analyzing protein-DNA recognition mechanisms. Structure (London, England : 1993). 12: 113-22. PMID 14725771 DOI: 10.1016/j.str.2003.11.022  1
2003 Bastard K, Thureau A, Lavery R, Prévost C. Docking macromolecules with flexible segments. Journal of Computational Chemistry. 24: 1910-20. PMID 14515373 DOI: 10.1002/jcc.10329  1
2003 Giudice E, Lavery R. Nucleic acid base pair dynamics: the impact of sequence and structure using free-energy calculations. Journal of the American Chemical Society. 125: 4998-9. PMID 12708848 DOI: 10.1021/ja034095r  1
2003 Giudice E, Várnai P, Lavery R. Base pair opening within B-DNA: free energy pathways for GC and AT pairs from umbrella sampling simulations. Nucleic Acids Research. 31: 1434-43. PMID 12595551 DOI: 10.1093/nar/gkg239  1
2003 Harvey SC, Wang C, Teletchea S, Lavery R. Motifs in nucleic acids: molecular mechanics restraints for base pairing and base stacking. Journal of Computational Chemistry. 24: 1-9. PMID 12483670 DOI: 10.1002/jcc.10173  1
2003 Bouvier B, Dognon JP, Lavery R, Markovitsi D, Millié P, Onidas D, Zakrzewska K. Influence of conformational dynamics on the exciton states of DNA oligomers Journal of Physical Chemistry B. 107: 13512-13522.  1
2002 Várnai P, Djuranovic D, Lavery R, Hartmann B. Alpha/gamma transitions in the B-DNA backbone. Nucleic Acids Research. 30: 5398-406. PMID 12490708 DOI: 10.1093/nar/gkf680  1
2002 Várnai P, Lavery R. Base flipping in DNA: pathways and energetics studied with molecular dynamic simulations. Journal of the American Chemical Society. 124: 7272-3. PMID 12071727 DOI: 10.1021/ja025980x  1
2002 Giudice E, Lavery R. Simulations of nucleic acids and their complexes. Accounts of Chemical Research. 35: 350-7. PMID 12069619 DOI: 10.1021/ar010023y  1
2002 Lavery R, Lebrun A, Allemand JF, Bensimon D, Croquette V. Structure and mechanics of single biomolecules: Experiment and simulation Journal of Physics Condensed Matter. 14: R383-R414. DOI: 10.1088/0953-8984/14/14/202  1
2001 Giudice E, Várnai P, Lavery R. Energetic and conformational aspects of A:T base-pair opening within the DNA double helix. Chemphyschem : a European Journal of Chemical Physics and Physical Chemistry. 2: 673-7. PMID 23686902 DOI: 10.1002/1439-7641(20011119)2:11<673::AID-CPHC673>3.0.CO;2-S  1
2001 Lafontaine I, Lavery R. High-speed molecular mechanics searches for optimal DNA interaction sites. Combinatorial Chemistry & High Throughput Screening. 4: 707-17. PMID 11812263  1
2001 Lebrun A, Lavery R, Weinstein H. Modeling multi-component protein-DNA complexes: the role of bending and dimerization in the complex of p53 dimers with DNA. Protein Engineering. 14: 233-43. PMID 11391015  1
2001 Crain J, Meeker SP, Hossack WJ, Lavery RJ, Poon WCK. Mechanical properties of thermo-reversible colloid liquid crystal composites Molecular Crystals and Liquid Crystals Science and Technology Section a: Molecular Crystals and Liquid Crystals. 364: 951-956.  1
2000 Lafontaine I, Lavery R. ADAPT: a molecular mechanics approach for studying the structural properties of long DNA sequences. Biopolymers. 56: 292-310. PMID 11754342 DOI: 10.1002/1097-0282(2000)56:4<292::AID-BIP10028>3.0.CO;2-9  1
2000 Lafontaine I, Lavery R. Optimization of nucleic acid sequences Biophysical Journal. 79: 680-685. PMID 10920002  1
2000 Ayadi L, Coulombeau C, Lavery R. The impact of abasic sites on DNA flexibility Journal of Biomolecular Structure and Dynamics. 17: 645-653. PMID 10698102  1
2000 Bertucat G, Lavery R, Prévost C. A mechanism for RecA-promoted sequence homology recognition and strand exchange between single-stranded DNA and duplex DNA, via triple-helical intermediates Journal of Biomolecular Structure and Dynamics. 17: 147-153. DOI: 10.1080/07391102.2000.10506615  1
2000 Rohs R, Sklenar H, Lavery R, Röder B. Methylene blue binding to DNA with alternating GC base sequence: A modeling study Journal of the American Chemical Society. 122: 2860-2866. DOI: 10.1021/ja992966k  1
2000 Lavery R. Perspective on "stereochemistry of polypeptide chain conformations" Theoretical Chemistry Accounts. 103: 257-258.  1
1999 Lavery R, Lebrun A. Modelling DNA stretching for physics and biology Genetica. 106: 75-84. PMID 10710712  1
1999 Ayadi L, Coulombeau C, Lavery R. Abasic sites in duplex DNA: Molecular modeling of sequence-dependent effects on conformation Biophysical Journal. 77: 3218-3226. PMID 10585943  1
1999 Ayadi L, Jourdan M, Coulombeau C, Garcia J, Lavery R. Experimental and theoretical studies of the conformational perturbations induced by an abasic site Journal of Biomolecular Structure and Dynamics. 17: 245-257. PMID 10563574  1
1999 Bruant N, Flatters D, Lavery R, Genest D. From atomic to mesoscopic descriptions of the internal dynamics of DNA Biophysical Journal. 77: 2366-2376. PMID 10545340  1
1999 Bertucat G, Lavery R, Prévost C. A molecular model for RecA-promoted strand exchange via parallel triple- stranded helices Biophysical Journal. 77: 1562-1576. PMID 10465767  1
1999 Lafontaine I, Lavery R. Collective variable modelling of nucleic acids Current Opinion in Structural Biology. 9: 170-176. PMID 10322207 DOI: 10.1016/S0959-440X(99)80024-4  1
1999 Rohs R, Etchebest C, Lavery R. Unraveling proteins: A molecular mechanics study Biophysical Journal. 76: 2760-2768. PMID 10233091  1
1999 Lebrun A, Lavery R. Modeling DNA deformations induced by minor groove binding proteins Biopolymers. 49: 341-353. PMID 10101970 DOI: 10.1002/(SICI)1097-0282(19990415)49:5<341::AID-BIP1>3.0.CO;2-C  1
1999 Stofer E, Chipot C, Lavery R. Free energy calculations of watson-crick base pairing in aqueous solution Journal of the American Chemical Society. 121: 9503-9508. DOI: 10.1021/ja991092z  1
1999 Zakrzewska K, Lavery R. Chapter 12 Modelling protein-DNA interactions Theoretical and Computational Chemistry. 8: 441-483. DOI: 10.1016/S1380-7323(99)80087-9  1
1999 Strick T, Allemand JF, Bensimon D, Lavery R, Croquette V. Phase coexistence in a single DNA molecule Physica a: Statistical Mechanics and Its Applications. 263: 392-404.  1
1999 Allemand JF, Bensimon D, Croquette V, Lavery R, Maier B, Strick T. The 'molecular hocus-pocus' | Le jokari moleculaire Biofutur. 26-27.  1
1998 Lebrun A, Lavery R. Modeling the mechanics of a DNA oligomer Journal of Biomolecular Structure and Dynamics. 16: 593-604. PMID 10052616  1
1998 Bertucat G, Lavery R, Prévost C. A model for parallel triple helix formation by RecA: Single-strand association with a homologous duplex via the minor groove Journal of Biomolecular Structure and Dynamics. 16: 535-546. PMID 10052612  1
1998 Allemand JF, Bensimon D, Lavery R, Croquette V. Stretched and overwound DNA forms a Pauling-like structure with exposed bases Proceedings of the National Academy of Sciences of the United States of America. 95: 14152-14157. PMID 9826669 DOI: 10.1073/pnas.95.24.14152  1
1998 Flatters D, Lavery R. Sequence-dependent dynamics of TATA-box binding sites Biophysical Journal. 75: 372-381. PMID 9649394  1
1997 Lebrun A, Lavery R. Unusual DNA conformations Current Opinion in Structural Biology. 7: 348-354. PMID 9204276 DOI: 10.1016/S0959-440X(97)80050-4  1
1997 Flatters D, Young M, Beveridge DL, Lavery R. Conformational properties of the TATA-box binding sequence of DNA. Journal of Biomolecular Structure & Dynamics. 14: 757-65. PMID 9195344 DOI: 10.1080/07391102.1997.10508178  1
1997 Prévost C, Boudvillain M, Beudaert P, Leng M, Lavery R, Vovelle F. Distortions of the DNA double helix induced by 1,3-trans- diamminedichloroplatinum(II)-intrastrand cross-link: An internal coordinate molecular modeling study Journal of Biomolecular Structure and Dynamics. 14: 703-714. PMID 9195339  1
1997 Lebrun A, Shakked Z, Lavery R. Local DNA stretching mimics the distortion caused by the TATA box-binding protein Proceedings of the National Academy of Sciences of the United States of America. 94: 2993-2998. PMID 9096334  1
1997 Gabb HA, Prévost C, Bertucat G, Robert CH, Lavery R. Collective-variable Monte Carlo simulation of DNA Journal of Computational Chemistry. 18: 2001-2011.  1
1997 Bernet J, Zakrzewska K, Lavery R. Modelling base pair opening: The role of helical twist Journal of Molecular Structure: Theochem. 398: 473-482.  1
1997 Flatters D, Zakrzewska K, Lavery R. Internal coordinate modeling of DNA: Force field comparisons Journal of Computational Chemistry. 18: 1043-1055.  1
1996 Hartmann B, Lavery R. DNA structural forms Quarterly Reviews of Biophysics. 29: 309-368. PMID 9080547  1
1996 Lebrun A, Lavery R. Modelling extreme stretching of DNA Nucleic Acids Research. 24: 2260-2267. PMID 8710494 DOI: 10.1093/nar/24.12.2260  1
1996 Sanghani SR, Zakrzewska K, Harvey SC, Lavery R. Molecular modelling of (A4T4NN)n and (T4A4NN)n: sequence elements responsible for curvature. Nucleic Acids Research. 24: 1632-7. PMID 8649979  1
1996 Cluzel P, Lebrun A, Heller C, Lavery R, Viovy JL, Chatenay D, Caron F. DNA: an extensible molecule. Science (New York, N.Y.). 271: 792-4. PMID 8628993  1
1996 Zakrzewska K, Madami A, Lavery R. Poisson-Boltzmann calculations for nucleic acids and nucleic acids complexes Chemical Physics. 204: 263-269. DOI: 10.1016/0301-0104(95)00345-2  1
1995 Lebrun A, Lavery R. Modeling a strand exchange tetraplex conformation Journal of Biomolecular Structure and Dynamics. 13: 459-464. PMID 8825725 DOI: 10.1080/07391102.1995.10508855  1
1995 Lavery R, Zakrzewska K, Sklenar H. JUMNA (junction minimisation of nucleic acids) Computer Physics Communications. 91: 135-158. DOI: 10.1016/0010-4655(95)00046-I  1
1995 Tufféry P, Etchebest C, Lavery R. Modelling of transmembrane α-helix bundles Molecular Engineering. 5: 1-9. DOI: 10.1007/BF00999574  1
1987 Zakrzewska K, Lavery R, Pullman B. A theoretical study of the sequence specificity in binding of lexitropsins to B-DNA. Journal of Biomolecular Structure & Dynamics. 4: 833-43. PMID 2855924 DOI: 10.1080/07391102.1987.10507681  1
1986 Zakrzewska K, Lavery R, Pullman B. Theoretical studies on the interaction of proteins and nucleic acid. II. The binding of alpha-helix to B-DNA. Biophysical Chemistry. 25: 201-13. PMID 3814753 DOI: 10.1016/0301-4622(86)87011-9  1
1986 Lavery R, Zakrzewska K, Pullman B. Binding of non-intercalating antibiotics to B-DNA: a theoretical study taking into account nucleic acid flexibility. Journal of Biomolecular Structure & Dynamics. 3: 1155-70. PMID 3271428 DOI: 10.1080/07391102.1986.10508492  1
1986 Lavery R, Sklenar H, Zakrzewska K, Pullman B. The flexibility of the nucleic acids: (II). The calculation of internal energy and applications to mononucleotide repeat DNA. Journal of Biomolecular Structure & Dynamics. 3: 989-1014. PMID 3271422 DOI: 10.1080/07391102.1986.10508478  1
1986 Sklenar H, Lavery R, Pullman B. The flexibility of the nucleic acids: (I). "SIR", a novel approach to the variation of polymer geometry in constrained systems. Journal of Biomolecular Structure & Dynamics. 3: 967-87. PMID 3271421 DOI: 10.1080/07391102.1986.10508477  1
1986 Lavery R, Sklenar H, Pullman B. The flexibility of the nucleic acids: (III). The interaction of an aliphatic diamine, putrescine, with flexible B-DNA. Journal of Biomolecular Structure & Dynamics. 3: 1015-31. PMID 3271411 DOI: 10.1080/07391102.1986.10508479  1
1985 Lavery R, Pullman B. The dependence of the surface electrostatic potential of B-DNA on environmental factors. Journal of Biomolecular Structure & Dynamics. 2: 1021-32. PMID 3916934 DOI: 10.1080/07391102.1985.10507618  1
1984 Zakrzewska K, Lavery R, Pullman B. The solvation contribution to the binding energy of DNA with non-intercalating antibiotics. Nucleic Acids Research. 12: 6559-74. PMID 6089121 DOI: 10.1093/nar/12.16.6559  1
1983 Lavery R, Pullman A, Pullman B. The electrostatic field of the component units of DNA and its relationship to hydration. Biophysical Chemistry. 17: 75-86. PMID 6824764 DOI: 10.1016/0301-4622(83)87016-1  1
1983 Zakrzewska K, Lavery R, Pullman B. Theoretical studies of the selective binding to DNA of two non-intercalating ligands: netropsin and SN 18071. Nucleic Acids Research. 11: 8825-39. PMID 6324104 DOI: 10.1093/nar/11.24.8825  1
1982 Lavery R, Pullman B. The electrostatic field of DNA: the role of the nucleic acid conformation. Nucleic Acids Research. 10: 4383-95. PMID 7122241 DOI: 10.1093/nar/10.14.4383  1
1982 Lavery R, Pullman B, Zakrzewska K. Intrinsic electrostatic properties and base sequence effects in the structure of oligonucleotides. Biophysical Chemistry. 15: 343-51. PMID 7115887 DOI: 10.1016/0301-4622(82)80017-3  1
1982 Lavery R, Pullman B. The effects of countercation screening on the electrostatic potential of DNA. The rôle of the nucleic acid conformation. Febs Letters. 142: 271-4. PMID 7106290 DOI: 10.1016/0014-5793(82)80150-6  1
1982 Pullman B, Lavery R, Pullman A. Two aspects of DNA polymorphism and microheterogeneity: molecular electrostatic potential and steric accessibility. European Journal of Biochemistry / Febs. 124: 229-38. PMID 7094914  1
1982 Corbin S, Lavery R, Pullman B. The molecular electrostatic potential and steric accessibility of double-helical A-RNA. Biochimica Et Biophysica Acta. 698: 86-92. PMID 6180767 DOI: 10.1016/0167-4781(82)90188-9  1
1981 Lavery R, Pullman B. The molecular electrostatic potential and steric accessibility of poly (dI.dC). Comparison with poly (dG.dC). Nucleic Acids Research. 9: 7041-51. PMID 7335499 DOI: 10.1093/nar/9.24.7041  1
1981 Lavery R, Pullman B, Corbin S. The molecular electrostatic potential and steric accessibility of poly (dA-dT). poly (dA-dT) in various conformations: B-DNA, D-DNA and 'alternating-B' DNA. Nucleic Acids Research. 9: 6539-52. PMID 7322922  1
1981 Lavery R, Pullman B. The molecular electrostatic potential and steric accessibility of A-DNA. Nucleic Acids Research. 9: 4677-88. PMID 7301586 DOI: 10.1093/nar/9.18.4677  1
1981 Lavery R, Pullman B. The molecular electrostatic potential, steric accessibility and hydration of Dickerson's B-DNA dodecamer d(CpGpCpGpApApTpTpCpGpCpG). Nucleic Acids Research. 9: 3765-77. PMID 7279672 DOI: 10.1093/nar/9.15.3765  1
1980 Zakrzewska K, Lavery R, Pullman A, Pullman B. The electrostatic potential and steric accessibility of reactive sites within Z-DNA. Nucleic Acids Research. 8: 3917-32. PMID 7443517 DOI: 10.1093/nar/8.17.3917  1
1980 Lavery R, Pullman A, Pullman B. The electrostatic molecular potential of yeast tRNAPhe. (I). The potential due to the phosphate backbone. Nucleic Acids Research. 8: 1061-79. PMID 7003554  1
1980 Lavery R, Pullman A, Pullman B, de Oliveira M. The electrostatic molecular potential of tRNAPhe. IV. The potentials and steric accessibilities of sites associated with the bases. Nucleic Acids Research. 8: 5095-111. PMID 7003548 DOI: 10.1093/nar/8.21.5095  1
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