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  1. 1.   Folding behavior of a T-shaped, ribosome-binding translation enhancer implicated in a wide-spread conformational switch
  2. Le, My-Tra; Kasprzak, Wojciech; Kim, Taejin; Gao, Feng; Young, Megan Y. L.; Yuan, Xuefeng; Shapiro, Bruce; Seog, Joonil; Simon, Anne E.
  3. ELIFE. 2017, Feb 13; 6: e22883.
  1. 2.   Novel Substrate-Based Inhibitors of Human Glutamate Carboxypeptidase II with Enhanced Lipophilicity
  2. Plechanovova, A.; Byun, Y.; Alquicer, G.; Skultetyova, L.; Mlcochova, P.; Nemcova, A.; Kim, H. J.; Navratil, M.; Mease, R.; Lubkowski, J.; Pomper, M.; Konvalinka, J.; Rulisek, L.; Barinka, C.
  3. Journal of Medicinal Chemistry. 2011, Nov; 54(21): 7535-7546.
  1. 3.   The Role of Response Elements Organization in Transcription Factor Selectivity: The IFN-beta Enhanceosome Example
  2. Pan, Y. P.; Nussinov, R.
  3. Plos Computational Biology. 2011, Jun; 7(6): 14.
  1. 4.   Understanding the effects of carbocyclic sugars constrained to north and south conformations on RNA nanodesign
  2. Kim, T.; Barchi, J. J.; Marquez, V. E.; Shapiro, B. A.
  3. Journal of Molecular Graphics & Modelling. 2011, Feb; 29(5): 624-634.
  1. 5.   Identifying and Characterizing a Functional HIV-1 Reverse Transcriptase-binding Site on Integrase
  2. Wilkinson, T. A.; Januszyk, K.; Phillips, M. L.; Tekeste, S. S.; Zhang, M.; Miller, J. T.; Le Grice, S.; Clubb, R. T.; Chow, S. A.
  3. Journal of Biological Chemistry. 2009 284(12): 7931-7936.
  1. 6.   RNAJunction: a database of RNA junctions and kissing loops for three-dimensional structural analysis and nanodesign
  2. Bindewald, E.; Hayes, R.; Yingling, Y. G.; Kasprzak, W.; Shapiro, B. A.
  3. Nucleic Acids Research. 2008 36: D392-D397.
  1. 7.   Periodicity, planarity, and pixel (3P): A program using the intrinsic residual dipolar coupling periodicity-to-peptide plane correlation and phi/psi angles to derive protein backbone structures
  2. Wang, J.; Walsh, J. D.; Kuszewski, J.; Wang, Y. X.
  3. Journal of Magnetic Resonance. 2007, Nov; 189(1): 90-103.
  1. 8.   The impact of dyskeratosis congenita mutations on the structure and dynamics of the human telomerase RNA pseudoknot domain
  2. Yingling, Y. G.; Shapiro, B. A.
  3. Journal of Biomolecular Structure & Dynamics. 2007, Feb; 24(4): 303-319.
  1. 9.   The prediction of the wild-type telomerase RNA pseudoknot structure and the pivotal role of the bulge in its formation
  2. Yingling, Y. G.; Shapiro, B. A.
  3. Journal of Molecular Graphics & Modelling. 2006, Oct; 25(2): 261-274.
  1. 10.   Antisense treatments for biothreat agents
  2. Warfield, K. L.; Panchal, R. G.; Aman, M. J.; Bavari, S.
  3. Current Opinion in Molecular Therapeutics. 2006, Apr; 8(2): 93-103.
  1. 11.   Nucleic acid binding and chaperone properties of HIV-1 Gag and nucleocapsid proteins
  2. Cruceanu, M.; Urbaneja, M. A.; Hixson, C. V.; Johnson, D. G.; Datta, S. A.; Fivash, M. J.; Stephen, A. G.; Fisher, R. J.; Gorelick, R. J.; Casas-Finet, J. R.; Rein, A.; Rouzina, I.; Williams, M. C.
  3. Nucleic Acids Research. 2006 34(2): 593-605.
  1. 12.   Endocytosis of HIV-1 activates plasmacytoid dendritic cells via toll-like receptor-viral RNA interactions
  2. Beignon, A. S.; McKenna, K.; Skoberne, M.; Manches, O.; Dasilva, I.; Kavanagh, D. G.; Larsson, M.; Gorelick, R. J.; Lifson, J. D.; Bhardwaj, N.
  3. Journal of Clinical Investigation. 2005, NOV; 115(11): 3265-3275.
  1. 13.   Effect of EBV LMP1 targeted DNAzymes on cell proliferation and apoptosis
  2. Lu, Z. X.; Ye, M.; Yan, G. R.; Li, Q.; Tang, M.; Lee, L. M.; Sun, L. Q.; Cao, Y.
  3. Cancer Gene Therapy. 2005, JUL; 12(7): 647-654.
  1. 14.   The contribution of the Trp/Met/Phe residues to physical interactions of p53 with cellular proteins
  2. Ma, B. Y.; Pan, Y. P.; Gunasekaran, K.; Keskin, O.; Venkataraghavan, R. B.; Levine, A. J.; Nussinov, R.
  3. Physical Biology. 2005, JUN; 2(2): S56-S66.
  1. 15.   Periodicity, planarity, residual dipolar coupling, and structures
  2. Walsh, J. D.; Wang, Y. X.
  3. Journal of Magnetic Resonance. 2005, MAY; 174(1): 152-162.
  1. 16.   Dynamic behavior of the telomerase RNA hairpin structure and its relationship to dyskeratosis congenita
  2. Yingling, Y. G.; Shapiro, B. A.
  3. Journal of Molecular Biology. 2005, APR 22; 348(1): 27-42.
  1. 17.   Integrase of Mason-Pfizer monkey virus
  2. Snasel, J.; Krejcik, Z.; Jencova, V.; Rosenberg, I.; Ruml, T.; Alexandratos, J.; Gustchina, A.; Pichova, I.
  3. Febs Journal. 2005, JAN; 272(1): 203-216.
  1. 18.   A kinetic model of telomere shortening in infants and adults
  2. Sidorov, I. A.; Gee, D.; Dimitrov, D. S.
  3. Journal of Theoretical Biology. 2004 226(2): 169-175.
  1. 19.   Immunodeficiency virus uptake, turnover, and 2-phase transfer in human dendritic cells
  2. Turville, S. G.; Santos, J. J.; Frank, I.; Cameron, P. U.; Wilkinson, J.; Miranda-Saksena, M.; Dable, J.; Stossel, H.; Romani, N.; Piatak, M.; Lifson, J. D.; Pope, M.; Cunningham, A. L.
  3. Blood. 2004 103(6): 2170-2179.
  1. 20.   Caught in the act: visualization of an intermediate in the DNA base-flipping pathway induced by Hhal methyltransferase
  2. Horton, J. R.; Ratner, G.; Banavali, N. K.; Huang, N.; Choi, Y.; Maier, M. A.; Marquez, V. E.; Mackerell, A. D.; Cheng, X. D.
  3. Nucleic Acids Research. 2004 32(13): 3877-3886.
  1. 21.   Motion and sorption of gas molecules in poly(octadecyl acrylate)
  2. Zanuy, D.; Zazueta, D. A.; Aleman, C.
  3. Polymer. 2003 44(16): 4735-4745.
  1. 22.   Peptide nucleic acids as epigenetic inhibitors of HIV-1
  2. Sei, S.
  3. Letters in Peptide Science. 2003 10(3-4): 269-286.
  1. 23.   Cancer cell dynamics in presence of telomerase inhibitors: Analysis of in vitro data
  2. Sidorov, I. A.; Hirsch, K. S.; Harley, C. B.; Dimitrov, D. S.
  3. Journal of Theoretical Biology. 2002 219(2): 225-233.
  1. 24.   Phosphorescence and optically detected magnetic resonance of polynucleotide complexes of tryptophan- and 5-methyltryptophan- containing peptide stereoisomers
  2. Misra, A.; Blair, M.; Stuart, C.; Ozarowski, A.; Casas-Finet, J. R.; Maki, A. H.
  3. Journal of Physical Chemistry B. 2002 106(14): 3735-3741.
  1. 25.   Phosphorescence and optically detected magnetic resonance of HIV-1 nucleocapsid protein complexes with stem-loop sequences of the genomic Psi-recognition element
  2. Maki, A. H.; Ozarowski, A.; Misra, A.; Urbaneja, M. A.; Casas-Finet, J. R.
  3. Biochemistry. 2001 40(5): 1403-1412.
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