Saint Petersburg State University




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particles; in: Selected topics in mathematical physics, Dedicated to Prof. Mikhail Shl\"emovich Birman on his 80th birthday, - Amer.Math.Soc.Transl. (2)v.225, pp.55-71, (2008)

  • V.S.Buslaev, S.B.Levin, P.Neittaannmaki, T.Ojala New approach to numerical computation of the eigenfunctions of the continuous spectrum of three-particle Schrodinger operator. I One-dimensional particles, short-range pair potentials.. J.Phys.A: Math.Theor. 43, (2010), 285205, (pp.17); arXiv:0909.4529v1 [math-ph], (2009).

  • L.Baskin, P.Neittaanmäki, B.Plamenevskii, O.Sarafanov, Asymptotic theory of resonant tunneling in 3D quantum waveguides of variable cross-section, SIAM Journal on Appl.Math., 70(2009), no.5, 1542-1566.

  • Lyalinov M.A., Acoustic scattering of a plane wave by a circular penetrable cone, Wave Motion, V. 48, pp. 62-82, (2011).

  • Lyalinov M.A., N.Y. Zhu and V.P. Smyshlyaev, Scattering of a plane electromagnetic wave by a hollow cone with thin semi-transparent walls, IMA Journal of Applied Mathem., V. 75, pp. 676-719, (doi:10.1093/imamat/hxq030), (2010).

  • N. Smorodina, M.Faddeev. The Levy-Khinchin representation of the  one class of  signed stable measures and some its applications. Acta Appl. Math. DOI 10.1007/s10440-009-9510-9 

  • S.Albeverio, N.Smorodina A Distributional Approach  to Multiple Stochastic Integrals and Transformations of the Poisson Measure  Acta Appl. Math. (2008) 102, 319-343; DOI 10.1007/s10440-008-9223-5

  • Laptev A., Östensson J.,Shterenberg R. and Sukhanov V. Reflectionless potentials for an ordinary differential operator of order four. Inverse Problem,  22 (2006), pp.135-153.

  • M.Sh. Birman, N. Filonov, Weyl's asymptotics of the spectrum of the Maxwell operator with non-smooth coefficients in Lipschitz domains. Amer. Math. Soc. Transl., Vol. 220, no. 2, P. 27-44, 2007.

  • Perel, M. V., and M. S. Sidorenko, Wavelet-based integral representation for solutions of the wave equation, Journal of Physics A: Mathematical and Theoretical, 42, 3752-3763, 2009.

  • Perel, M. V., and M. S. Sidorenko,, New physical wavelet 'Gaussian wave packet', Journal of Physics A: Mathematical and Theoretical, 40(13), 3441-3461, 2007.

  • Kurasov P.,Naboko S. Wigner-von Neumann perturbations of a periodic potentials: spectral singuliarities in bands. Math. Proc. Cambrige Phyl.Soc. 142 (2007),no.1, 161-183.

  • Janas J.,Naboko S.,Stolz G. Decay bounds of eigenfunctions and the singular spectrum of unbounded Jacobi matrices.,Int.Math.Res. Notes, IMRN (2009),no.4,736-764.

  • A.P. Kiselev, Localized light waves: Paraxial and exact solutions of the wave equation (a review) Optics and Spectroscopy, 2007, Volume 102, Number 4, Pages 603-622

  • I.V. Kamotskii and A.P. Kiselev, "An energy approach to the proof of the existence of Rayleigh waves in an anisotropic elastic half-space," J. Appl. Math. Mech. 73 (4), 464-470 (2009)

  • A.P.Kiselev,  D.F.Parker. Omni-directional Rayleigh, Stoneley and Scholte waveswith general time dependence. Proc. Roy. Soc. London, Ser. A, 466(2120), 2241-2258, 2010

  • M.I.Belishev. Recent progress in the boundary control method. Inverse Problems, 23 (2007), No 5, R1--R67.

  • M.I.Belishev and V.A.Sharafutdinov. Dirichlet to Neumann operator on differential forms. Bulletin de Sciences Mathematiques, 132 (2008), No 2, 128--145.

  • R. Romanov, On the concept of absolutely continuous subspace for nonselfadjointoperators, J. Oper. Theory, vol. 63 (2010), No. 2, 375 – 388.


    M
    olecular Biophysics


    R
    Professor Anatoli Trusov, Head of the Department

    M.Sc. 1962, Ph.D. 1967, D.Sc. 1982

    esearch
    staff: Prof. Pavel Vorontsov-Veliaminov , Prof. Vladislav Vojtulov, Prof.. Nina Kasianenko. Dr. Igor Kochnev, Dr. Alexander Polianichko, Dr. Sofia Paston, Dr. Alexei Voitulov, Dr. Alexei Kholoimov, Dr. Ludmila Shurupova, Dr. Vladimir Bakulev, Dr. Maja Sibileva, Dr. Evgenia Moroshkiha Dr. Yurchenko, Dr. Alexei Kononov, Dr. Yurchenko, Dr. Poliakov, Dr. Mercurieva.

    Educational direction:

    Physics profiles:

    Molecular Biophysics, Molecular Optics.

    Applied

    Mathematics and Physics profile:

    Nanobiophysics

    The main courses:

    • Methods of biological macromolecules investigations

    • Molecular biophysics

    • Conformation of polymers in а solution

    • Molecular biology

    • Radiation biology

    • Interaction of macromolecules with ligands

    • Quantum chemistry

    • Methods of nanosystems investigations

    • Electrooptics of solutions

    • Theory of polyelectrolytes

    • Methods of mathematical experiment

    • Interaction of nucleic acids with proteins

    • Radio-frequency spectroscopy

    • Introdaction to genetic engineering

    • Photobiology

    • Nanosystems visualization methods

    • Additional chapters of molecular spectroscopy

    • Laser spectroscopy. Spectroscopy of optical merging.

    • Diffraction experiments on liquids

    • Methods of molecular dynamics

    Constant cooperation with foreign high schools or institutes:

    Stockholm University (Sweden), Department of Material and

    Environmental Chemistry, Division of Physical Chemistry

    University of Nebraska (USA), Medical Center

    University of Freiburg (Germany), Institute for Microsystem

    Technology (IMTEK)

    University of Postdam (Germany)

    Research topics:

    • Elecrtrooptics and conductometry of disperse and biodisperse systems.

    • Electrokinetic properties of colloids and biocolloids.

    • DNA Interaction With Biological Active Compounds inSolution

    • DNA-Polymeric Complexes

    • Polyelectrolyte Properties of DNA

    • Structure of DNA Reversible Complexes with Biological Active Ligands

    • Structural Changes of DNA and Medical Supplying Synthetic Polymers under Influence of Environment Properties and During Interaction with Fullerenes and Phthalocyanines

    • Free energy calculations for polymer and other molecular systems with the aid of Monte Carlo expanded ensemble method.

    • Simulation and analytical studies of small and mesoscopic quantum particle systems at finite temperatures.

    • Molecular dynamics in water solutions of proteins and peptides by IR spectroscopy.

    • Study of molecular structure and dynamics in polymers, plastic and liquid crystals, biomolecular systems by NMR spectroscopy.

    • Molecular dynamics and intermolecular correlations in the disordered systems by the method of light scattering

    • Invironment and radiation effects on the luminescence of biopolymers and related molecules.

    Selected papers:

      1. A.A.Trusov, V.V.Vojtylov "Electrooptics and Conductometry of Polydisperse Systems" 1993, CRC Press, Boca Raton Ann Arbor London Tokyo.

      2. A. Melnikov, A. Spartakov, A. Trusov, V. Voitulov. Complex electrooptic research of nano-particle in colloids, Colloids and Surfaces B, 2007, v. 56, p. 65-71.

      3. A. Spartakov, A. Trusov, A. Voitylov, V. Vojtylov. ” Electro-Optics of Polydisperse Colloids”/in the book “Molecular and Colloidal Electro-Optics”, Surfactant science series volume 134, chap.7, CRC Taylor & Francis, 2007, p. 193-227.

      4. L. K. Babadzhanyants, A. V. Voitylov, V. V. Voitylov, and A. A. Trusov, Analysis of Polydispersity of Macromolecular and NanodisperseSystems by Electrooptical Methods Polymer Science, Ser. C, 2010, Vol. 52, No. 1, pp. 93–104.

      5. S.A. Klemeshev, M.P. Petrov, A.A. Trusov and A.V. Voitylov.
        Electrooptical effects in colloid systems subjected to short pulses of strong electric field. J. Phys.: Condens. Matter 22 (2010) 494106 (10pp)

      6. Kasyanenko N., Zanina A., Nazarova O., Panarin E. DNA Interaction with Complex Ions in Solution. Langmuir, 1999, v.15, n 23, p.7912-7917

      7. I. Turel, E. Morozova, V. Baculev, N. Kasyanenko, Jo Ann W. Byl, N. Osheroff. First Ruthenium Organometallic Complex of Antibacterial Agent Ofloxacin. Crystal Structure and Interactions with DNA. Inorg. Chem., 2010, 49, 23, pp 10750–10752

      8. N.A. Kasyanenko., E.V. Levykina., O.S. Erofeeva., N.A. Ivanova., I.A. Efimenko Study of influence of palladium acidocomplexes [Ln]m[PdX4] on DNA conformation in vitro Journal of Structural Chemistry; 2009, N 5, p. 1034-1044

      9. A. Puchkova, P. Sokolov, Y. Petrov and N. Kasyanenko. Metallization of DNA on silicon surface Journal of Nanoparticle Research, 2011, 1-9

      10. N.A. Kasyanenko, D. A. Afanasieva, B. A. Dribinsky, D. V. Mukhin, O. V. Nazarova, and E.F. Panarin. DNA interaction with synthetic polymers in solution. Struct. Chem, 18(4), 519-525, (2007).

      11. Moroshkina E.B., Bogdanov A.A.,Kolonistova M.O., Sedova O.B., Urusova T.A. Theeffect of counterion nature in solution on the DNA interaction with derivativesof phenoxasone, xantone and carbasol containing benzo-crown-fragments. Journal of Structural Chemistry,2009, V. 50, №5, P. 989-995.

      12. Polyanichko. A.M., Andrushchenko V.V., Bouř P., Wieser H. (2011) Vibrational circular dichroism studies of biological macromolecules and their complexes. In: “Circular Dichroism: Theory and Spectroscopy”, Edited by David S. Rodgers, Nova Science Publishers, Inc., New York, USA, 2011, pp. (ISBN: 978-1-61122-522-8)

      13. Tsankov D., Polyanichko A., Wieser H. (2010) Vibrational Circular Dichroism: Ensuring Quality of Pharmaceutical Products, In: “Handbook of Analysis and Pharmaceutical Quality. Pharmaceutical Sciences Encyclopedia: Drug Discovery, Development, and Manufacturing”, Edited by Shayne C. Gad, John Wiley & Sons, Inc, 1-41. (Online ISBN: 978-0-4705-7122-4).

      14. Chikhirzhina E.V., Polyanichko A.M., Kostyleva E.I., Vorobyev V.I. (2011) Structure of DNA Complexes with Chromosomal Protein HMGB1 and Histone H1 in the Presence of Manganese Ions. 1. Circular Dichroism Spectroscopy. Molecular Biology. 45(2), 318-326.

      15. Polyanichko A.M., Rodionova T.J., Vorob’ev V.I., Chikhirzhina E.V. (2011) Conformational Properties of nuclear protein HMGB1 and Specificity of Its Interaction with DNA. Cell and Tissue Biology. 5(2), 114-119.

      16. A.A. Mercurieva, P. Iakovlev, E.B. Zhulina, T.M. Birshtein, F.A.M. Leermakers Wetting Phase Diagrams of a Polyacid Brush with a Triple Point. Physical Review E, 2006 .74, 031803-031813

      17. A.A. Mercurieva, T.M. Birshtein, F.A.M. Leermakers Modeling of Charged Amphiphilic Copolymer Stars near Hydrophobic Surfaces Langmuir, 2009, 25 (19), 11516-11527

      18. Volkov N. A., Yurchenko A. A., Lyubartsev A. P., Vorontsov-Velyaminov P. N. Entropic sampling of free and ring polymer chains. Macromolecular Theory and Simulation, 14, 491-504 (2005).

      19. Broukhno A. V., Vorontsov-Velyaminov P. N., Bohr H. A Polymer Density Functional Theory to Efficiently Evaluate Path Integrals: Application to Atoms. Physical Review E, 72, 046703 (2005) .

      20. Vorontsov-Velyaminov P.N., Voznesenski M.A., Malakhov D.V., Lyubartsev A.P., Broukhno A.V. Path integral method in quantum statistics problems: general ensemble Monte Carlo and density functional approach. Journal of Physics A: Math. & General, 39, 4711-4716 (2006).

      21. Volkov N.A., Vorontsov-Velyaminov P.N., Lyubartsev A.P. Entropic sampling of flexible polyelectrolytes within Wang-Landau algorithm. Phys.Rev. E (2007) 75, 016705 – 1-10.

      22. Mikhail A. Karymov, Alexey Bogdanov, Yuri L. Lyubchenko Single Molecule Fluorescence Analysis of Branch Migration of Holliday Junctions: Effect of DNA Sequence. Biophysical Journal, 2008, v. 95, 3, 1239-1247.

      23. M. A. Karymov, M. Chinnaraj, A. Bogdanov, A. R. Srinivasan, G. Zheng, W. K. Olson, and Y. L. Lyubchenko Structure, Dynamics, and Branch Migration of a DNA Holliday Junction: A Single-Molecule Fluorescence and Modeling Study Biophysical Journal,2008, v. 95, 9, 4372 – 4383.

      24. Pavlov G.M., Gubarev A.S., Zajtseva I.I., Sibileva M.A. About the definition of intrinsic viscosity value of polyelectrolitic molecules in saltless solutions.J. Appl. Chem., 79, No. 9(2006)1423-1428.

      25. I.N. Kochnev Anharmonic dynamics: melting and mass transfer in liquid. Physica B, 373, 217-228, (2006).

    Selected projects

    • Simulation of molecular systems by generalized ensembles Monte Carlo methods Prof. P.N. Vorontsov-Velyaminov, Grant RFBR, 05-02-17428-а

    • Computer simulation of molecular nanosystems in the framework of classical and quantum statistics Prof. P.N. Vorontsov-Velyaminov, Grant RFBR, 08-02-00041-а

    • Stochastic simulation of equilibrium properties and dynamics of molecular systems in the framework of classical and quantum statistics. Prof. P.N. Vorontsov-Velyaminov, Grant RFBR, 11-02-00084-а

    • Anisotropic properties of disperse systems in magnetic field and their connection with electric and magnetic properties of colloidal
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