Articles     Conference Thesis       Books

  

Articles

  1. Sargsyan A.G., Semirgyan O.S., Piloyan S.V., Poghosyan A.H., Shahinyan A.A. “Investigation  of mesomorphism  of  liquid crystalline: sodium  pentadecyl sulfonate – water system under the influence of the temperature, by the methods of x-ray diffraction and molecular dynamics simulation”. Scientific Proceedings GSPI 2016, 1:93-100. PDF
  2. Poghosyan A.H., Arsenyan L.H., Shahinyan A.A., Koetz J. “Polyethyleneimine Loaded Inverse SDS Micelle in Pentanol/Toluene Media”, Colloids and Surfaces A: Physicochemical  and Engineering Aspects. 2016, 506(2):402-408. PDF
  3. Poghosyan A.H., Arsenyan L.H., Shahinyan A.A. “Shape of Long Chain Alkyl Sulfonate Micelle upon Salt Addition: A Molecular Dynamics Study”, Journal of Surfactants and Detergents. 2015, 18(5):755-760. PDF
  4. Poghosyan A.H., Ayvazyan N.M.“ Creation of mixed lipid bilayer: A force field development”, Biological Journal of Armenia. 2015. 67(5):96-98. PDF
  5. Poghosyan A.H.,Arsenyan L.H., Antonyan L.A., Shahinyan A.A., Koetz J. “Molecular dynamics simulations of branched polyethyleneimine in water-in-heptanol micelles stabilized by zwitterionic surfactants”, Colloids and Surfaces A: Physicochemical  and Engineering Aspects. 2015. 479:18-24. PDF
  6. Groda Y.G., Vikhrenko V.S., Poghosyan A.H., Hakobyan P.K., Arsenyan L.H., Shahinyan A.A.  “Conformation and Diffusion Properties of Polyvinyl Alcohol Polyvinylpyrrolidone Molecules”, New Electronic Journal of Natural Sciences.2015.1(24):60-67. PDF
  7. Poghosyan A.H. “Study of Molecular Dynamics of Lamellar Phase of Amphiphile/Water Systems”, Biological Journal of Armenia.2014.66(3):78-80. PDF
  8. Poghosyan A.H. “Temperature Dependent Phase Transitions in Alkyl Sulfonate/Water Systems. A Molecular Dynamics Study”, Reports of NAS RA.2014.114(3):261-266. PDF 
  9. Poghosyan A.H., Antonyan L.A., Arsenyan L.H., Shahinyan A.A. “Atomic level and Coarse-Grained Simulation of Long Chain Alkyl Sulfonate: Micelle Self-assembly”, Colloids and Surfaces A: Physicochemical  and Engineering Aspects. 2014, 462:99-106 .PDF
  10. Poghosyan A.H., Arsenyan L.H., Shahinyan A.A. “Long-chain Alkyl Sulfonate Micelle Fission: A Molecular Dynamics Study”, Colloid and Polymer Science.  2014, 292(12):3147-3156.PDF
  11. Poghosyan A.H., Arsenyan L.H, Astsatryan H.V. “Dynamic Features of Complex Systems: A Molecular Simulation Study”, Modeling and Optimization in Science and Technologies. 2014, 2:117-121.PDF
  12. Shahinyan A.A., Arsenyan L.H., Poghosyan A.H. “Molecular dynamics study of the structure and mechanism of formation of molecular associates in aqueous solutions of surfactants”, Russian Chemical Bulletin, International Edition. 2013, 7(62):1519-1524.PDF
  13. Shahinyan A.A., Arsenyan L.H., Poghosyan A.H. “Investigation of Lyotropic Liquid Crystal Using Computer Experiment”. Scientific Proceedings. 2013, 1:116-125. PDF
  14. Poghosyan A.H.,  Astsatryan H.V., Shahinyan A.A. “Parallel Peculiarities and Performance of GROMACS Package on HPC Platforms”. International Journal of Scientific and Engineering Research. 2013, 4(12):1755-1761. PDF
  15. Poghosyan A.H., Arsenyan L.H., Shahinyan A.A. “Molecular Dynamics Study of Intermediate Phase of Long Chain Alkyl Sulfonate/Water Systems”. Langmuir. 2013, 29(1):29-37. PDF
  16. Shahinyan A. A., Hakobyan P.K., Poghosyan A. H. “Simulation and Molecular Dynamics investigation of Simplified Asymmetric Model of Human Red Blood Cell Membrane”. Scientific Proceedings GSPI 2013, 2:55-74. PDF
  17. Shahinyan A.A., Hakobyan P.K., Gharabekyan H.A., Poghosyan A.H. “Simulation of Multicomponent Phospholipid Bilayer and Investigation of Its Structure By the Method of Molecular Dynamics”, Scientific News2012, 2(17):6-13. PDF
  18. Poghosyan A.H.,Arsenyan L.H., Hakobyan P.K., Vikhrenko V.S., and Groda Y.G. “The Conformational Peculiarities of Polyvinyl Alcohol molecule”, Proceedings of BSTU.2012, 6:48-50. (in russian) PDF
  19. Shahinyan A. A. , Hakobyan P. K., Arsenyan L. H., Poghosyan A. H. ”The Study of Lyotropic Liquid Crystal Structure Using the Molecular Dynamics Simulation Method”, Molecular Crystals and Liquid Crystals, 2012, 561: 155–169. PDF
  20. Poghosyan A.H, Arsenyan L.H., Astsatryan H., Gyurjyan M., Keropyan H., Shahinyan A.A. “NAMD Package Benchmarking on the Base of Armenian Grid Infrastructure”. Communications and Network. 2012, 4:34-40. PDF
  21. Hakobyan P.K., Poghosyan A. H., and Shahinyan A. A “The properties of glycophorin A transmembrane helices in erythrocyte asymmetric membrane: a molecular dynamics study”, The Journal of Atomic and Molecular Sciences (JAMS) 2011, 2: 281-288. PDF
  22. Poghosyan A.H., Arsenyan L.H., Gharabekyan H.H., Falkenhagen S., Koetz J., Shahinyan A.A. “Molecular dynamics simulations of inverse sodium dodecyl sulfate (SDS) micelles in a mixed toluene/pentanol solvent in the absence and presence of poly(diallyldimethylammonium chloride) (PDADMAC)”. Journal of Colloid and Interface Science, 2011, 358:175-181. PDF
  23. Aramyan S.A., Poghosyan A. H., Shahinyan A. A. “Interaction of L-Alanine and L-Valine aminoacid molecules with phospholipid bilayer. Molecular Dynamics Simulation” New Electronic Journal of Natural Sciences, 2010, 2:3-8. PDF
  24. Hakobyan P.K., Poghosyan A.H., Shahinyan A.A. “The properties of Glycophorin A transmembrane helices in erythrocyte asymmetric membrane. A molecular dynamics study”. New Electronic Journal of Natural Sciences, 2010, 1(14):36-40. PDF
  25. Hakobyan P.K., Gharabekyan H.H., Poghosyan A. H. Shahinyan A.A. “Dynamic research and simulation of the human erythrocyte membrane fragment by computer experiment”. Biological Journal of Armenia2010, 62(1):6-14. (in russian) PDF
  26. Shahinyan A.A., Arsenyan L. H., Poghosyan A.H., Shahinyan K.A. “The Study of Dynamic Structure of Compound using High Performance Calculations”, Fifth Siberian Workshop on Parallel and High Performance Computing, Tomsk, 1—3 December, 2009, pp. 94-107 , PDF
  27. Hakobyan P.K. “Molecular Dynamics simulation of complex phospholipid bilayer with cholesterol”. New Electronic Journal of Natural Sciences. 2009, 2 (13):58-62. PDF
  28. Arsenyan L.H. “Some problems of molecular dynamics study of sodium pentadecyl sulfonate/water lyotropic system”. New Electronic Journal of Natural Sciences2009, 1(12): 4-6. (AN 39230744) PDF
  29. Poghosyan A.H., Shahinyan A.A. “A new parameter for validation molecular dynamics simulation (MD) data”. Computer Physics Communications, 2009, 180(2):238-240. PDF
  30. Poghosyan A.H., Arsenyan L. H., Gharabekyan H. H., Koetz J., Shahinyan A. A. “Molecular dynamics study of poly diallyldimethylammonium chloride (PDADMAC)/sodium dodecyl sulfate (SDS)/decanol/water system”. The Journal of Physical Chemistry B. 2009, 113(5):1303-1310. PDF
  31. Arsenyan L.H., Poghosyan A. H., Shahinyan A. A. “A molecular dynamics simulation of Sodium pentadecyl sulphonate (SPDS)/water system”. Preprint The Abdus Salam ICTP. Italy, 2008, pp. 1-10. IC/2008/045 PDF
  32. Petrosyan T.G., Poghosyan A. H., Shahinyan A. A. “The Two Dimensional Discrete Model of Membranes”, New Electronic Journal of Natural Sciences20072:23-28. PDF
  33. Poghosyan A.A., Yeghiazaryan G. A., Gharabekyan H.H., Koetz J., Shahinyan A.A. “A molecular dynamics study of Na–dodecylsulfate/water liquid crystalline phase”. Molecular Simulation2007, 33(14):1155–1163. PDF
  34. Poghosyan A.H, Gharabekyan H.H, Shahinyan A.A. “Molecular Dynamics Simulation of DMPC/DPPC mixed bilayers”. International Journal of Modern Physics C (IJMP C)2007, 18(1): 73-89. PDF
  35. Shahinyan A.A. Gharabekyan H. H., Poghosyan A.H., Arsenyan L. H. “The Study of Some Problems on Molecular Biology and Chemistry of Surface Active Compounds Using Computer Experiments on ArmCluster”, Fourth Siberian Workshop on Parallel and High Performance ComputingTomsk, 9—11 October 2007, pp. 94-107. PDF
  36. Gharabekyan H.H. “The features of water molecules in mixed phospholipid bilayer: A Molecular Dynamics study” New Electronic Journal of Natural Sciences20062(7):42-44. PDF
  37. Poghosyan A.H., Yeghiazaryan G. A., Gharabekyan H. H. Shahinyan A. A. “The GROMACS and NAMD software packages comparison”. Communications in Computational Physics (CiCP). 2006, 1:736-743. PDF
  38. Yeghiazaryan G.A., Poghosyan A.H., Shahinyan A.A. “The water molecules orientation around the dipalmitoylphospatidylcholine head group: A molecular dynamics study”. Physica A2006, 362:197-203. PDF
  39. Yeghiazaryan G.A., Poghosyan A. H., Shahinyan, A. A. “Structural and Dynamical Features of hydrocarbon chains of Dipalmitoylphosphatidylcholine (DPPC) Molecules in Phospholipid Bilayers: A Molecular Dynamics Study” New Electronic Journal of Natural Sciences, 2005, 1:44-50. PDF
  40. Shahinyan A.A., Poghosyan A.H., Yeghiazaryan G.A., Gharabekyan H.H. “MDesigner: A Software Tool for Construction of Biomembranes”. New Electronic Journal of Natural Sciences20041:56-60. PDF
  41. Poghosyan A.H., Yeghiazaryan G.A., Shahinyan K.A., Shahinyan A.A. “Investigation of Surface of Phospholipid Bilayer: A Molecular Dynamics Study” New Electronic Journal of Natural Sciences20031:8-14. PDF
  42. Poghosyan A.H., Badalyan H.G., Shahinyan A.A.. “Computer Investigations of the Influence of External Electrostatic Field on Conformation of Macromolecule Containing Charged Groups”. Biophysics (Biofizika)2000. 45(1): 5-10.(in Russian)PDF
  43. Shahinyan A.A., Poghosyan A.H. and Badalyan H.G. “Computer simulation of structural changes in phospholipid bilayers”. International Journal of Modern Physics C, 2000, 11(1):153-156. PDF
  44. Poghosyan A.H. “Structural Changes in Phospholipid Membranes”. The Collected Articles of Young Scientists. 2000, 2:44-47. PDF

 

Conference Thesis

 

  1. Poghosyan A. H., Shahinyan A. A. “Frequency dependence scaling on K40 GPU. A GROMACS benchmarking”. KSCMBS’16  Khujand Symposium on Computational Materials and Biological Sciences, 24-28 September, Khujand 2016, Tajikistan, PDF
  2. Shahinyan А.А., Gevorgyan D.S., Topuzyan V.O., Poghosyan  A.H. “Molecular dynamics (MD) and drug design: Investigation of dynamic behavior of molecular components near the enzyme active site of  Butyrylcholinesterase (BCHE) ”. KSCMBS’16  Khujand Symposium on Computational Materials and Biological Sciences, 24-28 September, Khujand 2016, Tajikistan, PDF
  3. Shahinyan A.A., Arsenyan L.H., Poghosyan A.H. “Dynamics of naphthalene molecules accumulation in ionic spheric micelle with nano – heterogeneous structures formation. Molecular dynamics study “. The International Conference “Electron, Positron, Neutron and X-ray Scattering Under External Influences”, Book of Abstracts, 14-16 September, Yerevan 2015, Armenia, PDF
  4. Shahinyan A.A., Poghosyan A.H., Arsenyan L.H. “The Study of Fission Mechanism of Surfactant Micelles in Aqueous Solution: Molecular Dynamics Study”, The Fourth Scientific Armenian Conference of Chemical Society, 9-12 October,Yerevan-Vanadzor, 2014,pp. 17-20., Armenia, PDF
  5. Shahinyan A.A., Arsenyan L.H., Poghosyan A.H. “Molecular Dynamics Study of the Mechanism of Formation and Structure of Molecular Associates in Aqueous Solution of Amphiphilic Compounds”, Proceedings of International Conference “Сurrent Problems of Chemical Physics” dedicated to the 50th anniversary of the Institute of Chemical Physics NAS RA, 9-12 October,  Yerevan 2012, Armenia, PDF
  6. Shahinyan A.A., Arsenyan L.H., Poghosyan A.H. “The Study of Phase Diagram of the Surfactant/Water System by Molecular Dynamics Simulation”, Book of Abstracts of 5th Japan – Russia International Workshop “Molecular Simulation Studies in Material and Biological Sciences”, 9-12 September, Dubna 2012, pp. 32-33, Russia, PDF
  7. Poghosyan A.H.,Arsenyan L.H., Hakobyan P.K., Groda Y.G and Vikhrenko V.S., “Conformation and Diffusion Peculiarities of Polyvinyl Alcohol Molecule”, Abstract of Iran – Belarus International Conference on  “Modern Applications of Nanotechnology (IBCN12)”, 27-29 June,  Minsk 2012, Belarus, PDF 
  8. Poghosyan A.H.,Arsenyan L.H., Hakobyan P.K., Vikhrenko V.S., and Groda Y.G. “The Correlation Properties of Polyvinyl Pyrrolidone Molecule”, Proceedings of International Scientific-Technical Conference “Automatic control and automation of production processes”, 17-18 May, Minsk 2012, pp. 311-313., Belarus, (in russian) PDF
  9. Poghosyan A. H., Arsenyan L. A., Astsatryan H. V. “Comparative NAMD benchmarking on BlueGene/P”. MIPRO, 2012 Proceedings of the 35th International Conventionpp. 319-322., Opatija, Croatia.
  10. Shahinyan A.A., Arsenyan L.H., Poghosyan A.H. “The Study of lyotropic liquid crystal structure using the molecular dynamics simulation method”. Proceedings of 14th International Topical Meeting Optics of Liquid Crystals, 25th Anniversary, 25. Sept- 1 Oct.,Yerevan 2011, Armenia, O-19.
  11. Hakobyan P.K., Poghosyan A. H., Shahinyan A. A. “Structural Analysis of Glycophorin A Transmembrane Protein of Erythrocyte”. Book of Abstracts of International Conference On Electrons, Positrons, Neutrons and X-Rays Scattering Under External Influences, 17-22 October 2011, pp. 242-244, Yerevan-Meghri, Armenia PDF
  12. Arsenyan L. A., Poghosyan A. H., Shahinyan A. A. “The molecular dynamics study of coagel phase of sodium pentadecyl sulfonate (SPDS) water system”. Book of Abstracts of International Conference On Electrons, Positrons, Neutrons and X-Rays Scattering Under External Influences, 17-22 October 2011, pp. 235-241, Yerevan-Meghri, Armenia PDF 
  13.  Arsenyan L.H., Poghosyan A.H., Shahinyan A.A. “Molecular Dynamics Study of Structure of Microemulsion of Sodium Dodecylsulfate in Toluene/Pentanol Media”,The Second Scientific Armenian Conference of Chemical Society, 4-8 October,Yerevan-Goris,2010, pp.11-14., Armenia, PDF
  14. Hakobyan P.K., Gharabekyan H.H., Poghosyan A.H., Shahinyan A.A. “The modeling of dynamic structure of complex systems using molecular dynamics method by the example of the erythrocyte cell membrane”Book of Abstracts of International Conference On Electrons, Positrons, Neutrons and X-Rays Scattering Under External Influences, October 2009,Yerevan-Meghri, Armenia, pp. 60-61.
  15. Shahinyan A.A., Arsenyan L.H., Hakobyan P.K., Gharabekyan G.H. “Molecular dynamics study of biological membranes and lyotropic liquid crystals”. Proceedings of Third International Workshop SSMBS’08 “Molecular Simulation Studies in Material and Biological Sciences”, Dubna 2008, pp.14-15.,Russia
  16. Shahinyan A. A., Arsenyan L. H., Poghosyan A. H., Shahinyan K. A. “Molecular Dynamics Study of Lyotropic Liquid Crystals”. Proceedings of Conference Modern Problems of Chemical Physics, 21-24 October, 2008, Yerevan, pp. 14-15.,Armenia
  17. Arsenyan L. A., Poghosyan A. H. “Molecular Dynamic Simulation of Aqueous Solution of Detergent”. Proceedings of Conference Perspectives for Development of Mol. And Cell. Biol.”, 5-6 May, 2008, Yerevan, p. 51. Armenia
  18. Shahinyan A.A. , Poghosyan A. H., Gharabekyan H. H. “Simulation of Erythrocyte Cell Membrane: A Molecular Dynamics Study” Proceedings of Conf. Medical LabDiagnostics2006, pp. 123-133, Yerevan, Armenia.
  19. Shahinyan A.A., Poghosyan A.H., Gharabekyan H.H. “Computational Membranology: Molecular Dynamics Study of Erythrocyte Membrane” Proceedings of International Conference “Advanced Biotechnologies: Perspectives of Development in Armenia” July 11 – 14, 2006, Tsakhkadzor, Armenia
  20. Shahinyan A.A., Poghosyan A.H., Gharabekyan H.H., Shahinyan K.A.”Simulation of Erythrocyte Membrane. Molecular Dynamics Study”. Proceedings of International Workshop “Molecular Simulation Studies in Material and Biological Sciences”, MSSMBS 2006, September, 2006, Dubna, Russia.
  21. Gharabekyan H.H.,Yeghiazaryan G.A. “Comparison of Performance of Molecular Dynamics Packages NAMD and GROMACS by Simulation of Phospholipid Bilayers on ArmCluster”. Information technologies, International Young Conference, 2005, pp. 242-247. Yerevan, Armenia
  22. Yeghiazaryan G.A., Poghosyan A.H., Shahinyan A.A., Gharabekyan H.H. “Computer Simulation of Phospholipid Membrane Bilayer on ARMCLUSTER”, Fifth International Conference on Computer Science and Information Technologies (CSIT 2005), 19-23 September, 2005,Yerevan,Armenia
  23. Shahinyan A.A., Poghosyan A.H., Yeghiazaryan G.A., Shahinyan K.A. “Computational Membranology. Molecular Dynamics Study of Phospholipid Bilayer” Proceedings of International Workshop MSSMBS’04 “Molecular Simulation Studies in Material and Biological Sciences”, Dubna, September 9-102004, p.9.Russia
  24. Yeghiazaryan G. A., Poghosyan A. H., Shahinyan A.A. “Computer Membranology. Molecular Dynamics Simulation of Phospholipid Membranes”, Fourth Conference on Computer Science and Information Technologies, 22-26 September, 2003,Yerevan,Armenia.
  25. Poghosyan A.H. “The water Molecule Orientational Features Near the Dipalmitoylphosphatidylcholine Head Group: A Molecular Dynamics Study”. Book of Abstracts of International Conference On Statistical Physics and Dynamical Systems: Methods and Applications, 18-23 September 2003, Nor-Amberd, Armenia, p.6
  26. Poghosyan A. H., Astsatryan H. V., Adamyan M.O., Afrikian E. G. “Relational Database of Microbial Biodegradants” Modern Problems of Biol. Degrad. of Materials2002, 1:127-130
  27. Poghosyan A.H., Shahinyan A.A. “Two Dimensional Problem of Simulation of Lipid Membranes and Plane Micelles”. Third International Conference on Computer Science and Information Technologies, 2001, pp. 414-417.Yerevan,Armenia.

 

Books

 

  1. Mechanism of Interaction of Macromolecules with Surfactant Micelles in Aqueous Solution: A Molecular Dynamic Simulation -in Chapter 5. – Shahinyan A.A., Arsenyan L. H., Poghosyan A.H. Computational Materials and Biological Sciences; Editor: Kholmirzo T. Kholmurodov (Joint Institute for Nuclear Research – Dubna, Russia), Nova Publishers, 2015. PDF
  2. Models in Bioscience and Materials Research: Molecular Dynamics and Related Techniques -in Chapter 5. – Shahinyan A.A., Arsenyan L. H., Poghosyan A.H. The Study of Phase Diagram of the Surfactant/Water System by Molecular Dynamics Simulation; pp. 71-79 Editor: Kholmirzo T. Kholmurodov (Joint Institute for Nuclear Research – Dubna, Russia), Nova Publishers, 2013. PDF
  3. Molecular Dynamics of Nanobiostructures -in Chapter 3. – Shahinyan A.A., Hakobyan P.K., Poghosyan A.H. Molecular Dynamics Study of Human Red Blood Cell Membrane; pp. 43-62 Editor: Kholmirzo T. Kholmurodov (Joint Institute for Nuclear Research – Dubna, Russia), NovaPublishers, 2013. PDF 
  4. Poghosyan A.A. Shahinyan A.A. “Computational biology and bioinformatics. Molecular Dynamics and modeling”, Nairi 2011,Yerevan,Armenia, pp. 208,  ISBN 978-5-550-01639-8.
  5. Molecular Simulation Studies in Materials and Biological Sciences – in Chapter 4. – Shahinyan A.A., Shahinyan K.A., Poghosyan A.H., Yeghiazaryan G.A. Computational Membranology: Molecular Dynamic Study of Phospholipid Membranes; pp. 31-39 Editor: Kholmirzo T. Kholmurodov (Joint Institute for Nuclear Research – Dubna, Russia), Nova Publishers, 2007. PDF