Atlas virtual Organization




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НазваниеAtlas virtual Organization
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GLOW Virtual Organization




  1. Methods for point-source analysis with temporal structure in high-energy neutrino telescopes, J. Braun, et al., Astropart.Phys.33:175-181,2010. e-Print: arXiv:0912.1572



  1. Teague, B., Waterman, M.S., Goldstein, S., Potamousis, K., Zhou, S., Reslewic, S., Sarkar, D., Valouev, A., Churas, C., Kidd, J., Kohn, S., Runnhein, R., Lamers, C., Forrest, D., Newton, M.A., Eichler, E.E., Kent-First, M., Surti, U., Livny, M., and Schwartz, D.C. High-resolution human genome structure by single molecule analysis. Proc. Natl. Acad. Sci. USA, epub May 31, 2010 doi:10.1073/pnas.0914638107.



  1. Ma, L., van der Doe, H. C., Borkovich, K.A., Coleman, J.C., Daboussi, M.-J., Di Pietro, A., Dufresne, M., Freitag, M., Grabherr, M., Henrissat, B., Houterman, P.M., Kang, S., Shim, W.-B., Woloshuk, C., Xie, X., Xu, J.-R., Antoniw, J., Baker, S.E., Bluhm, B.H., Breakspear, A., Brown, D.W., Butchko, R.A.E., Chapman, S., Coulson, R., Coutinho, P.M., Danchin, E.G.J., Diener, A., Gale, L.R., Gardiner, D.M., Goff, S., Hammond-Kosack, K.E., Hilburn, K., Hua-Van, A., Jonkers, W., Kazan, K., Kodira, C.D., Michael Koehrsen, M., Kumar, L., Lee, Y.-H., Li , L. Manners, J.M., Miranda-Saavedra, D, Mukherjee, M., Park, G., Park, J., Park, S.-Y., Robert H. Proctor , Regev, A., Ruiz-Roldan, M.C., Sain, D., Sakthikumar, S., Sykes, S., Schwartz, D.C., Turgeon, B.G., Wapinski, I., Yoder, O., Young, S., Zeng, Q., Zhou, S., Galagan, J., Cuomo, C.A., Kistler, H.C and Rep, M.. Comparative genomics reveals mobile pathogenicity chromosomes in Fusarium. Nature, epubl March 18, 2010.



  1. Interpolation in the Directed Assembly of Block Copolymers on Nanopatterned Substrates: Simulation and Experiments. Franois A. Detcheverry, Guoliang Liu, Paul F. Nealey, Juan J. de Pablo. Macromolecules 2010 43 (7), 3446-3454



  1. Remediation of Line Edge Roughness in Chemical Nanopatterns by the Directed Assembly of Overlying Block Copolymer Films. Mark P. Stoykovich, Kostas Ch. Daoulas, Marcus Mller, Huiman Kang, Juan J. de Pablo, Paul F. Nealey. Macromolecules 2010 43 (5), 2334-2342



  1. 2D IR Line Shapes Probe Ovispirin Peptide Conformation and Depth in Lipid Bilayers. Ann Marie Woys, Yu-Shan Lin, Allam S. Reddy, Wei Xiong, Juan J. de Pablo, James L. Skinner, Martin T. Zanni. Journal of the American Chemical Society 2010 132 (8), 2832-2838



  1. "Heterogeneous dynamics during deformation of a polymer glass". Robert A. Riggleman, Hau-Nan Lee, Mark D. Ediger, and Juan J. de Pablo. Soft Matter 6(2):287-291, January 2010. [doi:10.1039/b912288e ]



  1. "Antiplastization and the elastic properties of glass-forming polymer liquids". Robert A. Riggleman, Jack F. Douglas, and Juan J. de Pablo. Soft Matter 6(2):292-304, January 2010. [doi:10.1039/b915592a ]



  1. "Human embryonic stem cell-derived keratinocytes exhibit an epidermal transcription program and undergo epithelial morphogenesis in engineered tissue contacts". Christian M. Metallo, Samira M. Azarin, Laurel E. Moses, Lin Ji, Juan J. de Pablo, and Sean P. Palecek. Tissue Engineering Part A 16(1):213-223, January 2010. [doi:10.1089/ten.tea.2009.0325 ]



  1. "Simulations of theoretically informed coarse grain models polymeric systems". Francois A. Detcheverry, Darin Q. Pike, Paul F. Nealey, Marcus Meuller, and Juan J. de Pablo. Faraday Discussions 144():111-125, January 2010. [doi:10.1039/b902283j ]



  1. GNNQQNY - Investigation of Early Steps during Amyloid Formation. Allam S. Reddy, Manan Chopra, Juan J. de Pablo. Biophysical Journal - 17 March 2010 (Vol. 98, Issue 6, pp. 1038-1045) [doi:10.1016/j.bpj.2009.10.057]



  1. Solution Structures of Rat Amylin Peptide: Simulation, Theory, and Experiment. Allam S. Reddy, Lu Wang, Yu-Shan Lin, Yun Ling, Manan Chopra, Martin T. Zanni, James L. Skinner, Juan J. De Pablo. Biophysical Journal - 3 February 2010 (Vol. 98, Issue 3, pp. 443-451) [doi:10.1016/j.bpj.2009.10.029]



  1. Disruption and formation of surface salt bridges are coupled to DNA binding in integration host factor (IHF): acomputational analysis, L. Ma, M. T. Record, Jr., N. Sundlass, R. T. Raines and Q. Cui, {\it J. Mol. Biol.}, Submitted



  1. An implicit solvent model for SCC-DFTB with Charge-Dependent Radii, G. Hou, X. Zhu and Q. Cui, {\it J. Chem. Theo. Comp.}, Submitted



  1. Sequence-dependent interaction of $\beta$-peptides with membranes, J. Mondal, X. Zhu, Q. Cui and A. Yethiraj, {\it J. Am. Chem. Soc.}, Submitted




  1. A new coarse-grained model for water: The importance of electrostatic interactions, Z. Wu, Q. Cui and A. Yethiraj, {\it J. Phys. Chem. B} Submitted



  1. How does bone sialoprotein promote the nucleation of hydroxyapatite? A molecular dynamics study using model peptides of different conformations, Y. Yang, Q. Cui, and N. Sahai, {\it Langmuir}, Submitted



  1. Preferential interactions between small solutes and the protein backbone: A computational analysis, L. Ma, L. Pegram, M. T. Record, Jr., Q. Cui, {\it Biochem.}, 49, 1954-1962 (2010)



  1. Establishing effective simulation protocols for $\beta$- and$\alpha/\beta$-peptides. III. Molecular Mechanical (MM) model for a non-cyclic $\beta$-residue, X. Zhu, P. K\"onig, M. Hoffman, A. Yethiraj and Q. Cui, {\it J. Comp. Chem.}, In press (DOI: 10.1002/jcc.21493)
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